AlloSure SNP Error Analysis

---

J. Collins | 2017-04-11

Table of Contents

1  Init

1.1  function definitions

1.2  pandas display options

1.3  i/o file paths

2  Data structure cleaning

2.1  distribute number of sample results

3  SNP error & background stats

Init

from collections import defaultdict, OrderedDict
from datetime import datetime
from math import log, sqrt
from matplotlib.backends.backend_pdf import PdfPages
from matplotlib.font_manager import FontProperties
from matplotlib.gridspec import GridSpec
from matplotlib.ticker import FuncFormatter
from operator import itemgetter
from scipy.stats import binom, norm, poisson
from tqdm import tqdm
import ggplot
import matplotlib as mpl
import matplotlib.mlab as mlabS
import matplotlib.pyplot as plt
import numpy as np
import os
import pandas as pd
import plotly
import random
import re
import seaborn as sns
import sys
import timeit

sns.set_style('whitegrid')
sns.set(font_scale=1.4)

%matplotlib inline

# from notebook.services.config import ConfigManager
# ConfigManager().update('notebook', {'ExecuteTime': {
#        'display_absolute_timestamps': False,
#        'display_absolute_timings': False,
#     'relative_timing_update_period': .005,
#     'template': {
#         'executed': 'started ${start_time}, finished in ${end_time}-${duration}',
#     }
# }})

import plotly.plotly as py
import cufflinks as cf

cf.set_config_file(offline=True, world_readable=True, theme='ggplot')

function definitions

# * * * ADD CUSTOM FUNCTIONS TO CFDNA_TOOLS MODULE * * *


def print_exec_time(init_time):
    '''Function defintion to track total time taken for 
       a given cell to complete its execution.
    '''
    elapsed = timeit.default_timer() - init_time
    print("Execution time: {} ms ".format(round(elapsed * 1000, 5)))


def mpl_reset():
    '''Undo Seaborn style'''
    del sns
    mpl.rcParams.update(mpl.rcParamsDefault)


def to_percent(y, position):
    '''Print dd-cfDNA labels in percentage.'''
    # Ignore the passed in position. This has the effect of scaling the default
    # tick locations.
    s = str(100 * y)
    # The percent symbol needs escaping in latex
    if mpl.rcParams['text.usetex'] is True:
        return s + r'$\%$'
    else:
        return s + '%'


def strip_all_whitespace(df):
    for col in df.columns:
        if df[col].dtype == object:
            tmp_s = df[col].str.strip()
            df.loc[:, col] = tmp_s
    return df


def convert_result_to_float(df, col_name, div=1):
    def f(x): return float(x) / div
    for col in df.columns:
        if col.endswith(col_name):
            tmp_s = df[col].str.replace('%', '')
            df.loc[:, col] = tmp_s.apply(f)
    return df


def return_numeric(df):
    return df_all.select_dtypes(
        include=['float64']).dropna(
        how='all',
        axis=1)


def t_init():
    return timeit.default_timer()

def distribute(series, n=100, set_xlim=True, p=97):
    sns.set_style('white')
    s = series.dropna()
    fig, ax1 = plt.subplots(nrows=1,
                            ncols=1,
                            figsize=(8, 8))
    y, x, _ = ax1.hist(
        s,
        bins=n,
        normed=True,
        fc='w',
        ec='k',
        lw=1.0,
        zorder=3,
        alpha=0.7,
        label='{}'.format(
            s.describe(
                percentiles=[0.05, 0.1, 0.25,
                             0.5, 0.75, 0.9,
                             0.95])))
    ax2 = ax1.twinx()
    mean = s.clip_upper(0.01).median()
    s_linx = np.linspace(min(s),
                         np.percentile(s, 95),
                         100)
    ax1.plot(s_linx,
             norm.pdf(s_linx,
                      loc=mean,
                      scale=s.clip_upper(0.01).std()),
             '--k', lw=2.0, zorder=5)
    ax2.plot(s_linx,
             poisson.pmf(np.arange(100),
                         mu=mean * (1e2 / max(s_linx))),
             '--', c='maroon', lw=2.0, zorder=6,
             label="poisson")
    for ax in (ax1, ax2):
        ax.xaxis.set_ticks_position('bottom')
        ax.set_xlim(min(s), max(s_linx))
        ax.spines['top'].set_visible(False)
        ax.xaxis.set_ticks_position('bottom')
        ax.tick_params('both',
                       width=1,
                       which='major',)
    ax.tick_params('y',
                   length=15,
                   colors='maroon',
                   pad=40,)
    ax1.legend(loc='best',
               bbox_to_anchor=(1, 1))
    sns.despine(ax=ax1,
                offset=10,
                trim=True)
    sns.despine(ax=ax2,
                offset=10,
                trim=True)
    fig.tight_layout()

['size', 'width', 'color', 'tickdir', 'pad', 'labelsize', 'labelcolor', 'zorder', 'gridOn', 'tick1On', 'tick2On', 'label1On', 'label2On', 'length', 'direction', 'left', 'bottom', 'right', 'top', 'labelleft', 'labelbottom', 'labelright', 'labeltop']

pandas display options

pd.set_option('display.max_columns', 200)
pd.set_option('display.max_colwidth', 500)
pd.set_option('display.max_rows', 240)
pd.set_option('display.width', 100)

# autopep8 -dv -a -a
# pip install jupyter_contrib_nbextensions
# jupyter nbextensions_configurator enable

AV_all_smpls_list = pd.read_clipboard().Sample.values
AV_all_smpls_list

array(['153B1A-Oct-26-15', '153B1B-Oct-26-15', '153B1C-Oct-27-15', ...,
       'WC44-14-07a-2-41092', 'TE93-34-45b-2-42353', 'NO56-89-30b-2-42354'], dtype=object)

i/o file paths

# File input pathnames:
# seq01_smpl     = '/Users/jcollins-macbook/Python/cfDNA/stanford/gallo-klvtx/CFDNA_SAMPLE_RESULT_REFLAB_MVW_01102017a.txt'
# seq01_SNP      = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/CFDNA_SNP_RESULT_T1.txt'
# seq01_smpl     = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/CFDNA_SAMPLE_RESULT_REFLAB_MVW_170201.csv'
# seq01_SNP      = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/CFDNA_SNP_RESULT_T1_170201.csv'

seq01_smpl       = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/Datasets/tertiary/170215_all_outputBySample.csv'
KT_smpl          = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/AlloSure--Analytical_Validation/PCR-Multiplexing-project/KT170203_SDU_output_updated 170308.txt'

seq01_SNP        = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/Datasets/tertiary/170215_all_outputBySNP.csv'
# seq01_SNP      = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caman trredx/Datasets/tertiary/CFDNA_SNP_RESULT_T1-2017_output.txt'
DART_lock2_smpls = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/Datasets/dart/DART_28Oct2017lock_eids.csv'
DART_lock2_PIDs  = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/Datasets/dart/DART_28Oct2017lock_eids_sid.csv'
SNP_MiSeq_cov    = '/Users/jcollins-macbook/Documents/iCloud-cfDNA/caredx/AlloSure--Analytical_Validation/PCR-Multiplexing-project/coverage-uniformity/282_amplicons_2X-vs-1X-coverage.csv'

SNP_cov = pd.read_csv(SNP_MiSeq_cov)
SNP_cov.set_index('SNP_ID', inplace=True)
SNP_cov

	Genome_location	Ref_start_pos	Ref_end_pos	rsID	SNP_pos_in_ref	Ref	Alt	amp_length	SNP_pos	SNP_cov_end_bound	SNP_cov_type
SNP_ID
IISNP1	chr11_115206646_115207761	501	616	rs10488710	chr11_115206646_115207761:531	C	G	116	31	35	False
IISNP10	chr4_46329095_46330254	501	660	rs279844	chr4_46329095_46330254:561	A	T	160	61	79	False
IISNP100	chr19_10599851_10600965	501	615	rs1048290	chr19_10599851_10600965:592	G	C	115	92	34	False
IISNP101	chr17_33998221_33999330	501	610	rs1049379	chr17_33998221_33999330:582	G	C	110	82	29	True
IISNP102	chr1_154744236_154745348	501	613	rs1051614	chr1_154744236_154745348:572	C	G	113	72	32	True
IISNP103	chr2_118574685_118575803	501	619	rs1052637	chr2_118574685_118575803:531	C	G	119	31	38	False
IISNP104	chr1_236381266_236382387	501	622	rs1055851	chr1_236381266_236382387:560	G	C	122	60	41	True
IISNP105	chr20_24939035_24940159	501	625	rs1056033	chr20_24939035_24940159:556	G	C	125	56	44	True
IISNP106	chr5_145441622_145442735	501	614	rs1056149	chr5_145441622_145442735:582	G	C	114	82	33	True
IISNP107	chr11_17519170_17520279	501	610	rs1064074	chr11_17519170_17520279:573	C	G	110	73	29	True
IISNP108	chr2_85769181_85770292	501	612	rs1078004	chr2_85769181_85770292:531	C	G	112	31	31	False
IISNP109	chr11_11292148_11293259	501	612	rs10831567	chr11_11292148_11293259:553	G	C	112	53	31	True
IISNP11	chr4_169663057_169664186	501	630	rs6811238	chr4_169663057_169664186:559	T	G	130	59	49	True
IISNP110	chr10_129899187_129900315	501	629	rs11106	chr10_129899187_129900315:592	G	C	129	92	48	False
IISNP111	chr1_75096893_75098000	501	608	rs11210490	chr1_75096893_75098000:534	G	C	108	34	27	True
IISNP112	chr7_130020932_130022055	501	624	rs1126899	chr7_130020932_130022055:557	G	C	124	57	43	True
IISNP113	chr15_78632267_78633388	501	622	rs1127472	chr15_78632267_78633388:564	C	G	122	64	41	True
IISNP114	chr10_24872787_24873906	501	620	rs1127893	chr10_24872787_24873906:583	C	G	120	83	39	False
IISNP115	chr5_176862952_176864062	501	611	rs1130857	chr5_176862952_176864062:568	G	C	111	68	30	True
IISNP116	chr4_88415067_88416171	501	605	rs1049544	chr4_88415067_88416171:570	G	C	105	70	24	True
IISNP117	chr19_44302506_44303626	501	621	rs11547806	chr19_44302506_44303626:561	C	G	121	61	40	True
IISNP118	chr12_121416065_121417194	501	630	rs1169289	chr12_121416065_121417194:558	C	G	130	58	49	True
IISNP119	chr9_2717972_2719101	501	630	rs12237048	chr9_2717972_2719101:563	C	G	130	63	49	True
IISNP12	chr16_78016473_78017602	501	630	rs430046	chr16_78016473_78017602:579	C	T	130	79	49	True
IISNP120	chr4_129042633_129043755	501	623	rs12508837	chr4_129042633_129043755:572	C	G	123	72	42	True
IISNP121	chr10_5136059_5137186	501	628	rs12529	chr10_5136059_5137186:593	C	G	128	93	47	False
IISNP122	chr6_170861722_170862832	501	611	rs12717	chr6_170861722_170862832:579	G	C	111	79	30	True
IISNP123	chr5_161118544_161119671	501	628	rs13184586	chr5_161118544_161119671:582	C	G	128	82	47	True
IISNP124	chr9_129455060_129456167	501	608	rs13295990	chr9_129455060_129456167:528	G	C	108	28	27	True
IISNP125	chr13_25008849_25009978	501	630	rs13428	chr13_25008849_25009978:593	C	G	130	93	49	False
IISNP126	chr19_48620482_48621601	501	620	rs13436	chr19_48620482_48621601:555	C	G	120	55	39	True
IISNP127	chr11_57798787_57799916	501	630	rs1374570	chr11_57798787_57799916:585	G	C	130	85	49	False
IISNP128	chr3_16305112_16306238	501	627	rs14080	chr3_16305112_16306238:563	C	G	127	63	46	True
IISNP129	chr9_125315189_125316306	501	618	rs1411271	chr9_125315189_125316306:590	G	C	118	90	37	False
IISNP13	chr19_39559236_39560337	501	602	rs576261	chr19_39559236_39560337:572	A	C	102	72	21	True
IISNP130	chr19_618466_619585	501	620	rs14155	chr19_618466_619585:556	G	C	120	56	39	True
IISNP131	chr1_247751483_247752601	501	619	rs1151687	chr1_247751483_247752601:537	G	C	119	37	38	False
IISNP132	chr12_49255241_49256366	501	626	rs1565933	chr12_49255241_49256366:558	G	C	126	58	45	True
IISNP133	chr12_14656198_14657327	501	630	rs1600	chr12_14656198_14657327:571	G	C	130	71	49	True
IISNP134	chr6_38781300_38782411	501	612	rs1678690	chr6_38781300_38782411:567	C	G	112	67	31	True
IISNP135	chr2_29415814_29416943	501	630	rs1881421	chr2_29415814_29416943:553	G	C	130	53	49	True
IISNP136	chr19_44981323_44982437	501	615	rs1897820	chr19_44981323_44982437:561	C	G	115	61	34	True
IISNP137	chr15_40655304_40656417	501	614	rs1898882	chr15_40655304_40656417:570	G	C	114	70	33	True
IISNP138	chr21_40669882_40670990	501	609	rs2056844	chr21_40669882_40670990:579	G	C	109	79	28	True
IISNP139	chr8_23058791_23059898	501	608	rs20575	chr8_23058791_23059898:534	C	G	108	34	27	True
IISNP14	chr8_28410486_28411610	501	625	rs10092491	chr8_28410486_28411610:587	T	C	125	87	44	False
IISNP140	chr21_47849924_47851051	501	628	rs2070426	chr21_47849924_47851051:561	G	C	128	61	47	True
IISNP141	chr6_33272320_33273427	501	608	rs2071888	chr6_33272320_33273427:536	G	C	108	36	27	True
IISNP142	chr12_31249317_31250444	501	628	rs2075322	chr12_31249317_31250444:545	C	G	128	45	47	False
IISNP143	chr6_52617161_52618275	501	615	rs2180314	chr6_52617161_52618275:571	C	G	115	71	34	True
IISNP144	chr6_41773010_41774136	501	627	rs2185798	chr6_41773010_41774136:567	G	C	127	67	46	True
IISNP145	chr12_5020815_5021938	501	624	rs2227910	chr12_5020815_5021938:534	G	C	124	34	43	False
IISNP146	chr9_137711436_137712561	501	626	rs2228560	chr9_137711436_137712561:562	G	C	126	62	45	True
IISNP147	chr2_215644872_215645995	501	624	rs2229571	chr2_215644872_215645995:593	C	G	124	93	43	False
IISNP148	chr2_75113219_75114341	501	623	rs2229627	chr2_75113219_75114341:571	C	G	123	71	42	True
IISNP149	chr3_129285829_129286957	501	629	rs2245285	chr3_129285829_129286957:585	G	C	129	85	48	False
IISNP15	chr16_5868144_5869263	501	620	rs2342747	chr16_5868144_5869263:557	A	G	120	57	39	True
IISNP150	chr21_44293171_44294278	501	608	rs2248490	chr21_44293171_44294278:574	C	G	108	74	27	True
IISNP151	chr7_150877678_150878790	501	613	rs2253592	chr7_150877678_150878790:583	C	G	113	83	32	False
IISNP152	chr1_22216012_22217133	501	622	rs2254357	chr1_22216012_22217133:593	C	G	122	93	41	False
IISNP153	chr14_58563143_58564270	501	628	rs2273442	chr14_58563143_58564270:552	G	C	128	52	47	True
IISNP154	chr10_99438974_99440086	501	613	rs2275047	chr10_99438974_99440086:568	G	C	113	68	32	True
IISNP155	chr12_130940594_130941723	501	630	rs2277361	chr12_130940594_130941723:557	G	C	130	57	49	True
IISNP156	chr12_56827164_56828284	501	621	rs2279665	chr12_56827164_56828284:531	C	G	121	31	40	False
IISNP157	chr9_8388794_8389902	501	609	rs2279776	chr9_8388794_8389902:571	C	G	109	71	28	True
IISNP158	chr22_37963741_37964868	501	628	rs2281098	chr22_37963741_37964868:559	C	G	128	59	47	True
IISNP159	chr19_10083723_10084832	501	610	rs2287813	chr19_10083723_10084832:570	C	G	110	70	29	True
IISNP16	chr3_32417091_32418199	501	609	rs4364205	chr3_32417091_32418199:554	T	G	109	54	28	True
IISNP160	chr17_76448943_76450062	501	620	rs2289751	chr17_76448943_76450062:563	G	C	120	63	39	True
IISNP161	chr15_22960301_22961425	501	625	rs2289818	chr15_22960301_22961425:568	G	C	125	68	44	True
IISNP162	chr1_87100813_87101939	501	627	rs2292830	chr1_87100813_87101939:563	C	G	127	63	46	True
IISNP163	chr8_27667377_27668505	501	629	rs2294092	chr8_27667377_27668505:593	C	G	129	93	48	False
IISNP164	chr6_126277677_126278784	501	608	rs2295005	chr6_126277677_126278784:554	G	C	108	54	27	True
IISNP165	chr10_90342263_90343376	501	614	rs2296545	chr10_90342263_90343376:575	C	G	114	75	33	True
IISNP166	chr7_138739465_138740586	501	622	rs2297236	chr7_138739465_138740586:573	G	C	122	73	41	True
IISNP167	chr7_156761669_156762794	501	626	rs2302443	chr7_156761669_156762794:556	G	C	126	56	45	True
IISNP168	chr16_88767192_88768321	501	630	rs2306049	chr16_88767192_88768321:578	G	C	130	78	49	True
IISNP169	chr22_45821381_45822501	501	621	rs1022478	chr22_45821381_45822501:576	C	G	121	76	40	True
IISNP17	chr20_15124404_15125523	501	620	rs445251	chr20_15124404_15125523:530	G	C	120	30	39	False
IISNP170	chr17_15216858_15217965	501	608	rs230898	chr17_15216858_15217965:580	C	G	108	80	27	True
IISNP171	chr19_36277889_36279010	501	622	rs231235	chr19_36277889_36279010:582	C	G	122	82	41	True
IISNP172	chr6_150209159_150210278	501	620	rs2342767	chr6_150209159_150210278:559	C	G	120	59	39	True
IISNP173	chr20_5903313_5904421	501	609	rs236152	chr20_5903313_5904421:536	C	G	109	36	28	True
IISNP174	chr3_48460757_48461883	501	627	rs2362450	chr3_48460757_48461883:557	C	G	127	57	46	True
IISNP175	chr2_27324182_27325292	501	611	rs2384571	chr2_27324182_27325292:543	G	C	111	43	30	True
IISNP176	chr5_75932415_75933522	501	608	rs2455230	chr5_75932415_75933522:551	G	C	108	51	27	True
IISNP177	chr5_140531170_140532269	501	600	rs246703	chr5_140531170_140532269:577	C	G	100	77	19	True
IISNP178	chr10_25700758_25701869	501	612	rs2480345	chr10_25700758_25701869:584	C	G	112	84	31	False
IISNP179	chr5_78339702_78340831	501	630	rs248385	chr5_78339702_78340831:556	C	G	130	56	49	True
IISNP18	chr9_27985366_27986466	501	601	rs7041158	chr9_27985366_27986466:573	C	T	101	73	20	True
IISNP180	chr1_62516111_62517226	501	616	rs2498982	chr1_62516111_62517226:573	G	C	116	73	35	True
IISNP181	chr10_38344113_38345242	501	630	rs2505232	chr10_38344113_38345242:588	C	G	130	88	49	False
IISNP182	chr11_94230690_94231811	501	622	rs2509943	chr11_94230690_94231811:568	C	G	122	68	41	True
IISNP183	chr16_4309882_4311001	501	620	rs251732	chr16_4309882_4311001:587	C	G	120	87	39	False
IISNP184	chr9_136536239_136537346	501	608	rs2519123	chr9_136536239_136537346:555	C	G	108	55	27	True
IISNP185	chr7_25194102_25195226	501	625	rs2523072	chr7_25194102_25195226:564	G	C	125	64	44	True
IISNP186	chr18_44560549_44561667	501	619	rs2571028	chr18_44560549_44561667:552	C	G	119	52	38	True
IISNP187	chr11_4566780_4567909	501	630	rs2657167	chr11_4566780_4567909:556	C	G	130	56	49	True
IISNP188	chr8_143694218_143695347	501	630	rs28686812	chr8_143694218_143695347:558	G	C	130	58	49	True
IISNP189	chr10_126714134_126715248	501	615	rs2946994	chr10_126714134_126715248:581	G	C	115	81	34	True
IISNP19	chr1_233447873_233448982	501	610	rs1294331	chr1_233447873_233448982:541	C	T	110	41	29	True
IISNP190	chr19_53343564_53344688	501	625	rs10419826	chr19_53343564_53344688:555	C	G	125	55	44	True
IISNP191	chr11_125763182_125764289	501	608	rs3088241	chr11_125763182_125764289:565	C	G	108	65	27	True
IISNP192	chr17_35901690_35902813	501	624	rs3110623	chr17_35901690_35902813:536	C	G	124	36	43	False
IISNP193	chr7_12268849_12269978	501	630	rs3173615	chr7_12268849_12269978:569	C	G	130	69	49	True
IISNP194	chr16_11773071_11774198	501	628	rs3190321	chr16_11773071_11774198:592	C	G	128	92	47	False
IISNP195	chr22_31490725_31491854	501	630	rs3205187	chr22_31490725_31491854:571	G	C	130	71	49	True
IISNP196	chr4_77660183_77661297	501	615	rs344141	chr4_77660183_77661297:549	C	G	115	49	34	True
IISNP197	chr4_186379303_186380429	501	627	rs35596415	chr4_186379303_186380429:597	G	C	127	97	46	False
IISNP198	chr22_22868645_22869769	501	625	rs362124	chr22_22868645_22869769:565	C	G	125	65	44	True
IISNP199	chr19_54663644_54664769	501	626	rs36657	chr19_54663644_54664769:566	G	C	126	66	45	True
IISNP2	chr3_113804421_113805528	501	608	rs1872575	chr3_113804421_113805528:559	G	A	108	59	27	True
IISNP20	chr5_17374335_17375441	501	607	rs159606	chr5_17374335_17375441:564	A	G	107	64	26	True
IISNP200	chr2_219601952_219603075	501	624	rs3731877	chr2_219601952_219603075:548	G	C	124	48	43	True
IISNP201	chr2_220378975_220380095	501	621	rs3731909	chr2_220378975_220380095:586	C	G	121	86	40	False
IISNP202	chr6_76659989_76661118	501	630	rs3734311	chr6_76659989_76661118:563	G	C	130	63	49	True
IISNP203	chr7_20180151_20181280	501	630	rs3735615	chr7_20180151_20181280:567	C	G	130	67	49	True
IISNP204	chr10_128018457_128019577	501	621	rs3740199	chr10_128018457_128019577:569	C	G	121	69	40	True
IISNP205	chr2_101009515_101010629	501	615	rs3748930	chr2_101009515_101010629:568	G	C	115	68	34	True
IISNP206	chr11_8946706_8947820	501	615	rs3751066	chr11_8946706_8947820:578	G	C	115	78	34	True
...	...	...	...	...	...	...	...	...	...	...	...
IISNP245	chr11_117163245_117164370	501	626	rs638405	chr11_117163245_117164370:580	C	G	126	80	45	True
IISNP246	chr6_56482232_56483352	501	621	rs6459166	chr6_56482232_56483352:570	C	G	121	70	40	True
IISNP247	chr6_138412785_138413907	501	623	rs648802	chr6_138412785_138413907:549	G	C	123	49	42	True
IISNP248	chr19_57837471_57838600	501	630	rs6510057	chr19_57837471_57838600:548	C	G	130	48	49	False
IISNP249	chr3_186917177_186918300	501	624	rs6764714	chr3_186917177_186918300:575	C	G	124	75	43	True
IISNP25	chr11_5098168_5099267	501	600	rs10768550	chr11_5098168_5099267:547	C	T	100	47	19	True
IISNP250	chr3_14755064_14756187	501	624	rs6790129	chr3_14755064_14756187:554	C	G	124	54	43	True
IISNP251	chr3_45052203_45053327	501	625	rs6794	chr3_45052203_45053327:573	G	C	125	73	44	True
IISNP252	chr3_183777454_183778574	501	621	rs6807362	chr3_183777454_183778574:557	G	C	121	57	40	True
IISNP253	chr4_139139958_139141085	501	628	rs6838248	chr4_139139958_139141085:537	G	C	128	37	47	False
IISNP254	chr7_141672808_141673933	501	626	rs713598	chr7_141672808_141673933:538	C	G	126	38	45	False
IISNP255	chr14_50798535_50799661	501	627	rs7161563	chr14_50798535_50799661:592	G	C	127	92	46	False
IISNP256	chr10_114052989_114054096	501	608	rs726009	chr10_114052989_114054096:558	C	G	108	58	27	True
IISNP257	chr1_214836531_214837646	501	616	rs7289	chr1_214836531_214837646:580	C	G	116	80	35	True
IISNP258	chr12_14018199_14019328	501	630	rs7301328	chr12_14018199_14019328:579	G	C	130	79	49	True
IISNP259	chr13_73348771_73349897	501	627	rs7332388	chr13_73348771_73349897:589	G	C	127	89	46	False
IISNP26	chr12_130761129_130762238	501	610	rs10773760	chr12_130761129_130762238:568	A	G	110	68	29	True
IISNP260	chr22_51063487_51064595	501	609	rs743616	chr22_51063487_51064595:553	G	C	109	53	28	True
IISNP261	chr6_36286765_36287879	501	615	rs743852	chr6_36286765_36287879:548	G	C	115	48	34	True
IISNP262	chr17_71232306_71233435	501	630	rs745142	chr17_71232306_71233435:576	G	C	130	76	49	True
IISNP263	chr6_46107197_46108304	501	608	rs7451713	chr6_46107197_46108304:556	C	G	108	56	27	True
IISNP264	chr1_205553518_205554618	501	601	rs7526132	chr1_205553518_205554618:568	G	C	101	68	20	True
IISNP265	chr1_47799106_47800221	501	616	rs7543016	chr1_47799106_47800221:534	G	C	116	34	35	False
IISNP266	chr2_28824241_28825363	501	623	rs7601771	chr2_28824241_28825363:553	C	G	123	53	42	True
IISNP267	chr7_4026399_4027521	501	623	rs7785899	chr7_4026399_4027521:546	C	G	123	46	42	True
IISNP268	chr1_111956532_111957661	501	630	rs7825	chr1_111956532_111957661:566	C	G	130	66	49	True
IISNP269	chr14_103439920_103441032	501	613	rs8009219	chr14_103439920_103441032:554	G	C	113	54	32	True
IISNP27	chr9_137416746_137417845	501	600	rs10776839	chr9_137416746_137417845:563	G	T	100	63	19	True
IISNP270	chr15_94883526_94884639	501	614	rs8025851	chr15_94883526_94884639:583	G	C	114	83	33	False
IISNP271	chr16_16278312_16279424	501	613	rs8058696	chr16_16278312_16279424:558	G	C	113	58	32	True
IISNP272	chr17_48625341_48626470	501	630	rs8076632	chr17_48625341_48626470:588	C	G	130	88	49	False
IISNP273	chr16_8952508_8953628	501	621	rs8097	chr16_8952508_8953628:574	C	G	121	74	40	True
IISNP274	chr19_18377056_18378185	501	630	rs8103906	chr19_18377056_18378185:592	G	C	130	92	49	False
IISNP275	chr1_17659939_17661046	501	608	rs874881	chr1_17659939_17661046:561	G	C	108	61	27	True
IISNP276	chr12_88440104_88441233	501	630	rs9262	chr12_88440104_88441233:573	G	C	130	73	49	True
IISNP277	chr3_118866464_118867580	501	617	rs9289122	chr3_118866464_118867580:584	C	G	117	84	36	False
IISNP278	chr17_42475406_42476535	501	630	rs936019	chr17_42475406_42476535:578	G	C	130	78	49	True
IISNP279	chr6_26508757_26509875	501	619	rs9393728	chr6_26508757_26509875:574	C	G	119	74	38	True
IISNP28	chr2_10085153_10086253	501	601	rs1109037	chr2_10085153_10086253:570	G	A	101	70	20	True
IISNP280	chr11_60700573_60701681	501	609	rs9513	chr11_60700573_60701681:564	C	G	109	64	28	True
IISNP281	chr19_56422500_56423625	501	626	rs977070	chr19_56422500_56423625:575	C	G	126	75	45	True
IISNP282	chr3_112642035_112643149	501	615	rs9865242	chr3_112642035_112643149:534	C	G	115	34	34	False
IISNP29	chr20_16240863_16241962	501	600	rs12480506	chr20_16240863_16241962:554	A	G	100	54	19	True
IISNP3	chr1_160786113_160787219	501	607	rs560681	chr1_160786113_160787219:558	A	G	107	58	26	True
IISNP30	chr2_182412681_182413789	501	609	rs12997453	chr2_182412681_182413789:579	A	G	109	79	28	True
IISNP31	chr4_76425332_76426441	501	610	rs13134862	chr4_76425332_76426441:565	G	A	110	65	29	True
IISNP32	chr6_12059397_12060504	501	608	rs13218440	chr6_12059397_12060504:558	G	A	108	58	27	True
IISNP33	chr6_94536699_94537824	501	626	rs1336071	chr6_94536699_94537824:557	T	C	126	57	45	True
IISNP34	chr6_123894407_123895512	501	606	rs1358856	chr6_123894407_123895512:572	C	A	106	72	25	True
IISNP35	chr10_97172060_97173166	501	607	rs1410059	chr10_97172060_97173166:536	T	C	107	36	26	True
IISNP36	chr6_120560128_120561231	501	604	rs1478829	chr6_120560128_120561231:567	T	A	104	67	23	True
IISNP37	chr1_4366758_4367875	501	618	rs1490413	chr1_4366758_4367875:566	G	A	118	66	37	True
IISNP38	chr11_5708471_5709577	501	607	rs1498553	chr11_5708471_5709577:558	C	T	107	58	26	True
IISNP39	chr20_51295583_51296712	501	630	rs1523537	chr20_51295583_51296712:580	T	C	130	80	49	True
IISNP4	chr8_144656177_144657285	501	609	rs4606077	chr8_144656177_144657285:578	T	C	109	78	28	True
IISNP40	chr4_157489335_157490443	501	609	rs1554472	chr4_157489335_157490443:572	G	A	109	72	28	True
IISNP41	chr18_55225209_55226308	501	600	rs1736442	chr18_55225209_55226308:569	T	C	100	69	19	True
IISNP42	chr15_39312848_39313954	501	607	rs1821380	chr15_39312848_39313954:555	C	G	107	55	26	True
IISNP43	chr4_10968504_10969612	501	609	rs2046361	chr4_10968504_10969612:556	T	A	109	56	28	True
IISNP44	chr22_23801605_23802709	501	605	rs2073383	chr22_23801605_23802709:567	T	C	105	67	24	True
IISNP45	chr6_152697130_152698240	501	611	rs214955	chr6_152697130_152698240:577	C	T	111	77	30	True
IISNP46	chr17_41286243_41287360	501	618	rs2175957	chr17_41286243_41287360:580	T	G	118	80	37	True
IISNP47	chr12_6908891_6910000	501	610	rs2255301	chr12_6908891_6910000:552	T	C	110	52	29	True
IISNP48	chr12_6945352_6946456	501	605	rs2269355	chr12_6945352_6946456:563	C	G	105	63	24	True
IISNP49	chr9_14746585_14747714	501	630	rs2270529	chr9_14746585_14747714:549	T	C	130	49	49	False
IISNP5	chr12_40862467_40863585	501	619	rs2920816	chr12_40862467_40863585:586	A	G	119	86	38	False
IISNP50	chr6_148760890_148761999	501	610	rs2272998	chr6_148760890_148761999:567	G	C	110	67	29	True
IISNP51	chr17_80525564_80526669	501	606	rs2291395	chr17_80525564_80526669:576	A	G	106	76	25	True
IISNP52	chr17_80765219_80766321	501	603	rs2292972	chr17_80765219_80766321:570	T	C	103	70	22	True
IISNP53	chr3_110300565_110301664	501	600	rs2399332	chr3_110300565_110301664:562	T	G	100	62	19	True
IISNP54	chr6_127462805_127463913	501	609	rs2503107	chr6_127462805_127463913:572	C	A	109	72	28	True
IISNP55	chr20_23016527_23017635	501	609	rs2567608	chr20_23016527_23017635:556	T	C	109	56	28	True
IISNP56	chr6_55155134_55156239	501	606	rs2811231	chr6_55155134_55156239:571	C	A	106	71	25	True
IISNP57	chr21_33582165_33583274	501	610	rs2833736	chr21_33582165_33583274:558	G	A	110	58	29	True
IISNP58	chr5_169735367_169736476	501	610	rs315791	chr5_169735367_169736476:554	A	C	110	54	29	True
IISNP59	chr7_137029274_137030380	501	607	rs321198	chr7_137029274_137030380:565	T	C	107	65	26	True
IISNP6	chr7_4309792_4310920	501	629	rs6955448	chr7_4309792_4310920:574	C	T	129	74	48	True
IISNP60	chr5_178690152_178691259	501	608	rs338882	chr5_178690152_178691259:574	G	A	108	74	27	True
IISNP61	chr17_80739299_80740406	501	608	rs3744163	chr17_80739299_80740406:561	G	C	108	61	27	True
IISNP62	chr10_17192789_17193898	501	610	rs3780962	chr10_17192789_17193898:558	A	G	110	58	29	True
IISNP63	chr8_136838646_136839775	501	630	rs4288409	chr8_136838646_136839775:584	A	C	130	84	49	False
IISNP64	chr14_104768569_104769678	501	610	rs4530059	chr14_104768569_104769678:581	G	A	110	81	29	True
IISNP65	chr21_28022802_28023902	501	601	rs464663	chr21_28022802_28023902:569	T	C	101	69	20	True
IISNP66	chr17_80531082_80532207	501	626	rs4789798	chr17_80531082_80532207:562	C	G	126	62	45	True
IISNP67	chr17_6810940_6812066	501	627	rs4796362	chr17_6810940_6812066:590	G	A	127	90	46	False
IISNP68	chr1_105717077_105718184	501	608	rs4847034	chr1_105717077_105718184:555	A	G	108	55	27	True
IISNP69	chr18_47370442_47371541	501	600	rs521861	chr18_47370442_47371541:573	C	G	100	73	19	True
IISNP7	chr13_100037637_100038761	501	625	rs1058083	chr13_100037637_100038761:597	A	G	125	97	44	False
IISNP70	chr22_19920061_19921192	501	632	rs5746846	chr22_19920061_19921192:586	C	G	132	86	51	False
IISNP71	chr11_122195414_122196543	501	630	rs590162	chr11_122195414_122196543:576	C	T	130	76	49	True
IISNP72	chr3_193206814_193207921	501	608	rs6444724	chr3_193206814_193207921:567	T	C	108	67	27	True
IISNP73	chr11_105912429_105913529	501	601	rs6591147	chr11_105912429_105913529:556	T	C	101	56	20	True
IISNP74	chr17_80715140_80716246	501	607	rs689512	chr17_80715140_80716246:563	G	C	107	63	26	True
IISNP75	chr16_7519685_7520809	501	625	rs7205345	chr16_7519685_7520809:570	C	G	125	70	44	True
IISNP76	chr14_53216148_53217276	501	629	rs722290	chr14_53216148_53217276:576	G	C	129	76	48	True
IISNP77	chr18_22738427_22739556	501	630	rs7229946	chr18_22738427_22739556:575	G	A	130	75	49	True
IISNP78	chr10_118506324_118507433	501	610	rs740598	chr10_118506324_118507433:576	G	A	110	76	29	True
IISNP79	chr1_14154833_14155962	501	630	rs7520386	chr1_14154833_14155962:570	G	A	130	70	49	True
IISNP8	chr21_43606463_43607573	501	611	rs221956	chr21_43606463_43607573:535	T	C	111	35	30	True
IISNP80	chr5_159487382_159488507	501	626	rs7704770	chr5_159487382_159488507:572	G	A	126	72	45	True
IISNP81	chr17_41341424_41342523	501	600	rs8070085	chr17_41341424_41342523:561	A	G	100	61	19	True
IISNP82	chr17_80461344_80462465	501	622	rs8078417	chr17_80461344_80462465:592	C	T	122	92	41	False
IISNP83	chr1_239881353_239882471	501	619	rs891700	chr1_239881353_239882471:574	A	G	119	74	38	True
IISNP84	chr11_11095660_11096769	501	610	rs901398	chr11_11095660_11096769:562	C	T	110	62	29	True
IISNP85	chr13_84456181_84457286	501	606	rs9546538	chr13_84456181_84457286:555	T	C	106	55	25	True
IISNP86	chr22_19919790_19920889	501	600	rs9606186	chr22_19919790_19920889:570	C	G	100	70	19	True
IISNP87	chr18_29310484_29311587	501	604	rs985492	chr18_29310484_29311587:551	G	A	104	51	23	True
IISNP88	chr3_59487752_59488863	501	612	rs9866013	chr3_59487752_59488863:589	T	C	112	89	31	False
IISNP89	chr22_33558944_33560052	501	609	rs987640	chr22_33558944_33560052:565	T	A	109	65	28	True
IISNP9	chr5_136632784_136633892	501	609	rs13182883	chr5_136632784_136633892:555	G	A	109	55	28	True
IISNP90	chr17_2918812_2919921	501	610	rs9905977	chr17_2918812_2919921:582	A	G	110	82	29	True
IISNP91	chr2_124108634_124109748	501	615	rs993934	chr2_124108634_124109748:580	A	G	115	80	34	True
IISNP92	chr18_9749309_9750416	501	608	rs9951171	chr18_9749309_9750416:571	G	A	108	71	27	True
IISNP93	chr7_47924777_47925902	501	626	rs10274334	chr7_47924777_47925902:555	C	G	126	55	45	True
IISNP94	chr19_57085220_57086327	501	608	rs10421285	chr19_57085220_57086327:550	G	C	108	50	27	True
IISNP95	chr19_41938759_41939869	501	611	rs1043413	chr19_41938759_41939869:539	C	G	111	39	30	True
IISNP96	chr1_19447280_19448406	501	627	rs1044010	chr1_19447280_19448406:564	C	G	127	64	46	True
IISNP97	chr8_142203762_142204884	501	623	rs1045248	chr8_142203762_142204884:565	C	G	123	65	42	True
IISNP98	chr14_31354504_31355624	501	621	rs1045644	chr14_31354504_31355624:593	C	G	121	93	40	False
IISNP99	chr11_58318053_58319181	501	629	rs1047979	chr11_58318053_58319181:567	C	G	129	67	48	True

282 rows × 11 columns

afreq_nans = all_SNP.ix[(all_SNP.SNPPASSQC) & (all_SNP.ADJUSTEDFREQUENCY.isnull())].index.unique()

print(list(sorted(afreq_nans)))

['17-a1-h1-b1', '18-a1-h1-b1', '19-a1-h1-b1', '20-a1-h1-b1', '21-a1-h1-b1', '22-a1-h1-b1', '23-a1-h1-b1', '24-a1-h1-b1', '25-a1-h1-b1', '26-a1-h1-b1', '27-a1-h1-b1', '28-a1-h1-b1', '29-a1-h1-b1', '30-a1-h1-b1', '31-a1-h1-b1', '32-a1-h1-b1', '878-879-01', '878-879-02', '878-879-03', '878-879-04', '878-879-05', '878-879-06', '878-879-07', '878-879-08', '878-879-09', '878-882-01', '878-882-02', '878-882-03', '878-882-04', '878-882-05', '878-882-06', '878-882-07', '878-882-08', '878-882-09', '878-890-01', '878-890-02', '878-890-03', '878-890-04', '878-890-05', '878-890-06', '878-890-07', '878-890-08', '878-890-09', 'A150521Aa', 'A150521Ab', 'A150521Ba', 'A150521Bb', 'A150521Ca', 'A150521Cb', 'A150521Da', 'A150521Db', 'A150522Ea', 'A150522Eb', 'A150529Fa', 'A150529Fb', 'A150529Fcd', 'AB07-52-38', 'AI96-92-01', 'AK22-50-91', 'AL62-25-54', 'AS41-44-54', 'AVBlank-Aug-20-15', 'AVBlank-Aug-21-15', 'AVBlank-Aug-26-15', 'AVBlank-Aug-28-15', 'AVBlank-Aug-31-15', 'AVBlank-Sep-15-15', 'AVBlank-Sep-16-15', 'AVBlank-Sep-17-15', 'AVBlank-Sep-18-15', 'AVBlank-Sep-4-15', 'AVBlank-Sep-9-15', 'AVBlank-c-Sep-3-15', 'AVHigh1-Aug-20-15', 'AVHigh1-Aug-21-15', 'AVHigh1-Aug-26-15', 'AVHigh1-Aug-28-15', 'AVHigh1-Aug-31-15', 'AVHigh1-Sep-15-15', 'AVHigh1-Sep-16-15', 'AVHigh1-Sep-17-15', 'AVHigh1-Sep-18-15', 'AVHigh1-Sep-4-15', 'AVHigh1-Sep-9-15', 'AVHigh1-c-Sep-3-15', 'AVHigh2-Aug-20-15', 'AVHigh2-Aug-21-15', 'AVHigh2-Aug-26-15', 'AVHigh2-Aug-28-15', 'AVHigh2-Aug-31-15', 'AVHigh2-Sep-15-15', 'AVHigh2-Sep-16-15', 'AVHigh2-Sep-17-15', 'AVHigh2-Sep-18-15', 'AVHigh2-Sep-4-15', 'AVHigh2-Sep-9-15', 'AVHigh2-c-Sep-3-15', 'AVLow1-Aug-20-15', 'AVLow1-Aug-21-15', 'AVLow1-Aug-26-15', 'AVLow1-Aug-28-15', 'AVLow1-Aug-31-15', 'AVLow1-Sep-15-15', 'AVLow1-Sep-16-15', 'AVLow1-Sep-17-15', 'AVLow1-Sep-18-15', 'AVLow1-Sep-4-15', 'AVLow1-Sep-9-15', 'AVLow1-c-Sep-3-15', 'AVLow2-Aug-20-15', 'AVLow2-Aug-21-15', 'AVLow2-Aug-26-15', 'AVLow2-Aug-28-15', 'AVLow2-Aug-31-15', 'AVLow2-Sep-15-15', 'AVLow2-Sep-16-15', 'AVLow2-Sep-18-15', 'AVLow2-Sep-4-15', 'AVLow2-Sep-9-15', 'AVLow2-c-Sep-3-15', 'AVStreck0001-Aug-20-15', 'AVStreck0001-Aug-21-15', 'AVStreck0001-Aug-26-15', 'AVStreck0001-Aug-28-15', 'AVStreck0001-Aug-31-15', 'AVStreck0001-Sep-18-15', 'Aa', 'Ab', 'BJ06-11-07', 'BM48-78-43', 'BN30-68-87', 'BP02-02-48', 'BT99-10-22', 'Ba', 'Bb', 'C4-5-5-1-Aug-13-15', 'C4-5-5-2-Aug-13-15', 'C4-5-5-3-Aug-13-15', 'C4-5-7-1-Aug-13-15', 'C4-5-7-2-Aug-13-15', 'C4-5-7-3-Aug-13-15', 'C4-5-9-1-Aug-13-15', 'C4-5-9-2-Aug-13-15', 'C4-5-9-3-Aug-13-15', 'C5-5-5-1-Aug-13-15', 'C5-5-5-2-Aug-13-15', 'C5-5-7-1-Aug-13-15', 'C5-5-7-2-Aug-13-15', 'C5-5-7-3-Aug-13-15', 'C5-5-9-1-Aug-13-15', 'C5-5-9-2-Aug-13-15', 'CA02-87-78', 'CA91-50-33', 'CI78-80-72', 'CO59-99-45', 'CX79-19-15', 'CY32-38-29', 'CY90-45-41', 'CY97-97-83', 'CZ06-72-39', 'Ca', 'DD67-88-05', 'DE45-89-82', 'DLS-2010824-a1-h1-b1', 'DLS-2012024-a1-h1-b1', 'DLS-2020824-a1-h1-b1', 'DLS-2030824-a1-h1-b1', 'DLS-2032024-a1-h1-b1', 'DLS-2040824-a1-h1-b1', 'DLS-2050824-a1-h1-b1', 'DLS-2052024-a1-h1-b1', 'DLS-2060824-a1-h1-b1', 'DLS-2070824-a1-h1-b1', 'DLS-2072024-a1-h1-b1', 'DLS-2080824-a1-h1-b1', 'DLS-2090824-a1-h1-b1', 'DLS-2092024-a1-h1-b1', 'DLS-2100824-a1-h1-b1', 'DLS-2110824-a1-h1-b1', 'DLS4-1-0-A1-a1-h1-b1', 'DLS4-1-0-A2-a1-h1-b1', 'DLS4-1-0-B1-a1-h1-b1', 'DLS4-1-0-B2-a1-h1-b1', 'DLS4-1-0-C1-a1-h1-b1', 'DLS4-1-0-C2-a1-h1-b1', 'DLS4-1-0-D1-a1-h1-b1', 'DLS4-1-0-D2-a1-h1-b1', 'DLS4-1-0-E1-a1-h1-b1', 'DLS4-1-0-E2-a1-h1-b1', 'DLS4-1-0p5-A1-a1-h1-b1', 'DLS4-1-0p5-A2-a1-h1-b1', 'DLS4-1-0p5-B1-a1-h1-b1', 'DLS4-1-0p5-B2-a1-h1-b1', 'DLS4-1-0p5-C1-a1-h1-b1', 'DLS4-1-0p5-C2-a1-h1-b1', 'DLS4-1-0p5-C3-a1-h1-b1', 'DLS4-1-0p5-D1-a1-h1-b1', 'DLS4-1-0p5-D2-a1-h1-b1', 'DLS4-1-0p5-D3-a1-h1-b1', 'DLS4-1-0p5-E1-a1-h1-b1', 'DLS4-1-0p5-E2-a1-h1-b1', 'DLS4-1-0p5-E3-a1-h1-b1', 'DLS4-1-1', 'DLS4-1-1-A1-a1-h1-b1', 'DLS4-1-1-A2-a1-h1-b1', 'DLS4-1-1-B1-a1-h1-b1', 'DLS4-1-1-B2-a1-h1-b1', 'DLS4-1-1-C1-a1-h1-b1', 'DLS4-1-1-C2-a1-h1-b1', 'DLS4-1-1-D1-a1-h1-b1', 'DLS4-1-1-D2-a1-h1-b1', 'DLS4-1-1-E1-a1-h1-b1', 'DLS4-1-1-E2-a1-h1-b1', 'DLS4-1-100', 'DLS4-1-100-A1-a1-h1-b1', 'DLS4-1-100-A2-a1-h1-b1', 'DLS4-1-100-B1-a1-h1-b1', 'DLS4-1-100-B2-a1-h1-b1', 'DLS4-1-100-C1-a1-h1-b1', 'DLS4-1-100-C2-a1-h1-b1', 'DLS4-1-100-D1-a1-h1-b1', 'DLS4-1-100-D2-a1-h1-b1', 'DLS4-1-100-E1-a1-h1-b1', 'DLS4-1-100-E2-a1-h1-b1', 'DLS4-1-3-A1-a1-h1-b1', 'DLS4-1-3-A2-a1-h1-b1', 'DLS4-1-3-B1-a1-h1-b1', 'DLS4-1-3-B2-a1-h1-b1', 'DLS4-1-3-C1-a1-h1-b1', 'DLS4-1-3-C2-a1-h1-b1', 'DLS4-1-3-C3-a1-h1-b1', 'DLS4-1-3-D1-a1-h1-b1', 'DLS4-1-3-D2-a1-h1-b1', 'DLS4-1-3-D3-a1-h1-b1', 'DLS4-1-3-E1-a1-h1-b1', 'DLS4-1-3-E2-a1-h1-b1', 'DLS4-1-3-E3-a1-h1-b1', 'DLS4-2-0-B1-a1-h1-b1', 'DLS4-2-0-C1-a1-h1-b1', 'DLS4-2-0-D1-a1-h1-b1', 'DLS4-2-0-E1-a1-h1-b1', 'DLS4-2-0p5-B1-a1-h1-b1', 'DLS4-2-0p5-C1-a1-h1-b1', 'DLS4-2-0p5-D1-a1-h1-b1', 'DLS4-2-0p5-E1-a1-h1-b1', 'DLS4-2-100-B1-a1-h1-b1', 'DLS4-2-3-B1-a1-h1-b1', 'DV34-91-66', 'DX42-81-71', 'DX45-46-01', 'Da', 'EG35-12-76', 'EL30-36-39', 'EQ67-17-22', 'ES05-71-07', 'EX69-26-00', 'Ea', 'Eb', 'FG78-35-13', 'FL75-72-86', 'FN44-92-67', 'FR49-24-67', 'FR65-60-84', 'FT60-19-49', 'FT95-21-33', 'FZ88-59-94', 'Fa', 'Fb', 'GB61-23-72', 'GG40-39-07', 'GG99-38-50', 'GN50-37-27', 'GN55-85-68', 'GQ81-80-24', 'GZ96-86-33', 'Ga', 'HC87-23-78', 'HD-418-01-a1-h1-b1', 'HD-418-02-a1-h1-b1', 'HD-418-03-a1-h1-b1', 'HD-418-04-a1-h1-b1', 'HD-418-05-a1-h1-b1', 'HD-418-06-a1-h1-b1', 'HD-418-07-a1-h1-b1', 'HD-418-08-a1-h1-b1', 'HD-418-09-a1-h1-b1', 'HD-418-10-a1-h1-b1', 'HD-418-11-a1-h1-b1', 'HD-418-12-a1-h1-b1', 'HD-418-13-a1-h1-b1', 'HD-418-14-a1-h1-b1', 'HD-418-15-a1-h1-b1', 'HD-418-16-a1-h1-b1', 'HD-441-02-a1-h1-b1', 'HD-441-03-a1-h1-b1', 'HD-441-04-a1-h1-b1', 'HD-441-05-a1-h1-b1', 'HD-441-06-a1-h1-b1', 'HD-441-07-a1-h1-b1', 'HD-441-08-a1-h1-b1', 'HD-441-09-a1-h1-b1', 'HD-441-10-a1-h1-b1', 'HD-441-11-a1-h1-b1', 'HD-441-12-a1-h1-b1', 'HD-441-13-a1-h1-b1', 'HD-441-14-a1-h1-b1', 'HD-441-15-a1-h1-b1', 'HD-441-16-a1-h1-b1', 'HD-441-17-a1-h1-b1', 'HH45-40-34', 'HP51-95-01', 'HRZ-3-5-a1-h1-b1', 'HRZ-3-7-a1-h1-b1', 'HRZ-5-1-F1-a1-h1-b1', 'HRZ-5-1-F2-a1-h1-b1', 'HRZ-5-1-G1-a1-h1-b1', 'HRZ-5-1-G2-a1-h1-b1', 'HRZ-5-1-H1-a1-h1-b1', 'HRZ-5-1-H2-a1-h1-b1', 'HRZ-5-1-I1-a1-h1-b1', 'HRZ-5-1-I2-a1-h1-b1', 'HRZ-5-1-J1-a1-h1-b1', 'HRZ-5-1-J2-a1-h1-b1', 'HRZ-5-2-F2-a1-h1-b1', 'HRZ-5-2-G2-a1-h1-b1', 'HRZ-5-2-H2-a1-h1-b1', 'HRZ-5-2-I2-a1-h1-b1', 'HRZ-5-2-J2-a1-h1-b1', 'HRZ-5-4-F2-a1-h1-b1', 'HRZ-5-4-G2-a1-h1-b1', 'HRZ-5-4-H2-a1-h1-b1', 'HRZ-5-4-I2-a1-h1-b1', 'HRZ-5-4-J2-a1-h1-b1', 'HRZ-5-6-F2-a1-h1-b1', 'HRZ-5-6-G2-a1-h1-b1', 'HRZ-5-6-H2-a1-h1-b1', 'HRZ-5-6-I2-a1-h1-b1', 'HRZ-5-6-J2-a1-h1-b1', 'HRZ-6-3-O1-a1-h1-b1', 'HRZ-6-6-M1-a1-h1-b1', 'HRZ-6-6-N1-a1-h1-b1', 'HRZ-6-6-O1-a1-h1-b1', 'HRZ-601-03-27', 'HRZ-601-03-28', 'HRZ-601-03-29', 'HRZ-601-08-27', 'HRZ-601-08-28', 'HRZ-601-08-29', 'HRZ-602-03-26', 'HRZ-602-03-27', 'HRZ-602-03-28', 'HRZ-602-03-29', 'HRZ-602-08-26', 'HRZ-602-08-27', 'HRZ-602-08-28', 'HRZ-602-08-29', 'HRZ-603-03-26', 'HRZ-603-03-27', 'HRZ-603-03-28', 'HRZ-603-03-29', 'HRZ-603-08-26', 'HRZ-603-08-27', 'HRZ-603-08-28', 'HRZ-603-08-29', 'HRZ-604-03-26', 'HRZ-604-03-27', 'HRZ-604-03-28', 'HRZ-604-03-29', 'HRZ-604-08-26', 'HRZ-604-08-27', 'HRZ-604-08-28', 'HRZ-604-08-29', 'HRZ-605-03-26', 'HRZ-605-03-27', 'HRZ-605-03-28', 'HRZ-605-03-29', 'HRZ-605-08-26', 'HRZ-605-08-27', 'HRZ-605-08-28', 'HRZ-605-08-29', 'HRZ-606-03-26', 'HRZ-606-03-27', 'HRZ-606-03-28', 'HRZ-606-03-29', 'HRZ-606-08-26', 'HRZ-606-08-27', 'HRZ-606-08-28', 'HRZ-606-08-29', 'HRZ-607-03-26', 'HRZ-607-03-27', 'HRZ-607-03-28', 'HRZ-607-03-29', 'HRZ-607-08-26', 'HRZ-607-08-27', 'HRZ-607-08-28', 'HRZ-607-08-29', 'HRZ-608-03-26', 'HRZ-608-03-27', 'HRZ-608-03-28', 'HRZ-608-03-29', 'HRZ-608-08-26', 'HRZ-608-08-27', 'HRZ-608-08-28', 'HRZ-608-08-29', 'HRZ-609-03-26', 'HRZ-609-03-28', 'HRZ-609-03-29', 'HRZ-609-08-26', 'HRZ-609-08-28', 'HRZ-609-08-29', 'HRZ-7-1-a', 'HRZ-7-3-M1-a1-h1-b1', 'HRZ-7-3-N1-a1-h1-b1', 'HRZ-7-3-O1-a1-h1-b1', 'HRZ-7-3-a', 'HRZ-7-6-M1-a1-h1-b1', 'HRZ-7-6-N1-a1-h1-b1', 'HRZ-7-6-O1-a1-h1-b1', 'HRZ-7-6-a', 'HRZ-701-03-26', 'HRZ-701-03-27', 'HRZ-701-03-29', 'HRZ-701-08-26', 'HRZ-701-08-27', 'HRZ-701-08-29', 'HRZ-702-03-26', 'HRZ-702-03-27', 'HRZ-702-03-28', 'HRZ-702-03-29', 'HRZ-702-08-26', 'HRZ-702-08-27', 'HRZ-702-08-28', 'HRZ-702-08-29', 'HRZ-703-03-26', 'HRZ-703-03-27', 'HRZ-703-03-28', 'HRZ-703-03-29', 'HRZ-703-08-26', 'HRZ-703-08-27', 'HRZ-703-08-28', 'HRZ-703-08-29', 'HRZ-704-03-26', 'HRZ-704-03-27', 'HRZ-704-03-28', 'HRZ-704-03-29', 'HRZ-704-08-26', 'HRZ-704-08-27', 'HRZ-704-08-28', 'HRZ-704-08-29', 'HRZ-705-03-26', 'HRZ-705-03-27', 'HRZ-705-03-28', 'HRZ-705-03-29', 'HRZ-705-08-26', 'HRZ-705-08-27', 'HRZ-705-08-28', 'HRZ-705-08-29', 'HRZ-706-03-26', 'HRZ-706-03-27', 'HRZ-706-03-28', 'HRZ-706-03-29', 'HRZ-706-08-26', 'HRZ-706-08-27', 'HRZ-706-08-28', 'HRZ-706-08-29', 'HRZ-707-03-26', 'HRZ-707-03-27', 'HRZ-707-03-28', 'HRZ-707-03-29', 'HRZ-707-08-26', 'HRZ-707-08-27', 'HRZ-707-08-28', 'HRZ-707-08-29', 'HRZ-708-03-26', 'HRZ-708-03-27', 'HRZ-708-03-28', 'HRZ-708-03-29', 'HRZ-708-08-26', 'HRZ-708-08-27', 'HRZ-708-08-29', 'HRZ-8-3-M1-a1-h1-b1', 'HRZ-8-3-N1-a1-h1-b1', 'HRZ-8-3-O1-a1-h1-b1', 'HRZ-8-6-M1-a1-h1-b1', 'HRZ-8-6-N1-a1-h1-b1', 'HRZ-8-6-O1-a1-h1-b1', 'HRZ-801-03-26', 'HRZ-801-03-27', 'HRZ-801-03-28', 'HRZ-801-08-26', 'HRZ-801-08-27', 'HRZ-801-08-28', 'HRZ-801A-00-1', 'HRZ-801A-00-2', 'HRZ-801A-05-1', 'HRZ-801A-05-2', 'HRZ-801A-10-1', 'HRZ-801A-10-2', 'HRZ-801A-30-1', 'HRZ-801A-30-2', 'HRZ-802-03-26', 'HRZ-802-03-27', 'HRZ-802-03-28', 'HRZ-802-03-29', 'HRZ-802-08-26', 'HRZ-802-08-27', 'HRZ-802-08-28', 'HRZ-802-08-29', 'HRZ-803-03-26', 'HRZ-803-03-27', 'HRZ-803-03-28', 'HRZ-803-03-29', 'HRZ-803-08-26', 'HRZ-803-08-27', 'HRZ-803-08-28', 'HRZ-803-08-29', 'HRZ-804-03-26', 'HRZ-804-03-27', 'HRZ-804-03-28', 'HRZ-804-03-29', 'HRZ-804-08-26', 'HRZ-804-08-27', 'HRZ-804-08-28', 'HRZ-804-08-29', 'HRZ-805-03-26', 'HRZ-805-03-27', 'HRZ-805-03-28', 'HRZ-805-03-29', 'HRZ-805-08-26', 'HRZ-805-08-27', 'HRZ-805-08-28', 'HRZ-805-08-29', 'HRZ-806-03-26', 'HRZ-806-03-27', 'HRZ-806-03-28', 'HRZ-806-03-29', 'HRZ-806-08-26', 'HRZ-806-08-27', 'HRZ-806-08-28', 'HRZ-806-08-29', 'HRZ-807-03-26', 'HRZ-807-03-27', 'HRZ-807-03-28', 'HRZ-807-03-29', 'HRZ-807-08-26', 'HRZ-807-08-27', 'HRZ-807-08-28', 'HRZ-807-08-29', 'HRZ-808-03-26', 'HRZ-808-03-27', 'HRZ-808-03-28', 'HRZ-808-03-29', 'HRZ-808-08-26', 'HRZ-808-08-27', 'HRZ-808-08-28', 'HRZ-808-08-29', 'HRZ-8a-1-0-a', 'HRZ-8a-1-0-b', 'HRZ-8a-1-1-a', 'HRZ-8a-1-1-b', 'HRZ-8a-1-3-a', 'HRZ-8a-1-3-b', 'HRZ-8a-105-a', 'HRZ-8a-105-b', 'HRZ-cntrl-1', 'HRZ-cntrl-3', 'HRZ0060203-Aug-20-15', 'HRZ0060203-Aug-21-15', 'HRZ0060203-Aug-26-15', 'HRZ0060203-Aug-28-15', 'HRZ0060203-Aug-31-15', 'HRZ0060203-Sep-15-15', 'HRZ0060203-Sep-16-15', 'HRZ0060203-Sep-17-15', 'HRZ0060203-Sep-18-15', 'HRZ0060203-Sep-4-15', 'HRZ0060203-Sep-9-15', 'HRZ0060203-c-Sep-3-15', 'HRZ0060208-Aug-20-15', 'HRZ0060208-Aug-21-15', 'HRZ0060208-Aug-26-15', 'HRZ0060208-Aug-28-15', 'HRZ0060208-Aug-31-15', 'HRZ0060208-Sep-15-15', 'HRZ0060208-Sep-16-15', 'HRZ0060208-Sep-17-15', 'HRZ0060208-Sep-18-15', 'HRZ0060208-Sep-4-15', 'HRZ0060208-Sep-9-15', 'HRZ0060208-c-Sep-3-15', 'HRZ0060303-Aug-20-15', 'HRZ0060303-Aug-21-15', 'HRZ0060303-Aug-26-15', 'HRZ0060303-Aug-28-15', 'HRZ0060303-Aug-31-15', 'HRZ0060303-Sep-15-15', 'HRZ0060303-Sep-16-15', 'HRZ0060303-Sep-17-15', 'HRZ0060303-Sep-18-15', 'HRZ0060303-Sep-4-15', 'HRZ0060303-Sep-9-15', 'HRZ0060303-c-Sep-3-15', 'HRZ0060308-Aug-20-15', 'HRZ0060308-Aug-21-15', 'HRZ0060308-Aug-26-15', 'HRZ0060308-Aug-28-15', 'HRZ0060308-Aug-31-15', 'HRZ0060308-Sep-15-15', 'HRZ0060308-Sep-16-15', 'HRZ0060308-Sep-17-15', 'HRZ0060308-Sep-18-15', 'HRZ0060308-Sep-4-15', 'HRZ0060308-Sep-9-15', 'HRZ0060308-c-Sep-3-15', 'HRZ0060403-Aug-20-15', 'HRZ0060403-Aug-21-15', 'HRZ0060403-Aug-26-15', 'HRZ0060403-Aug-28-15', 'HRZ0060403-Aug-31-15', 'HRZ0060403-Sep-15-15', 'HRZ0060403-Sep-16-15', 'HRZ0060403-Sep-17-15', 'HRZ0060403-Sep-18-15', 'HRZ0060403-Sep-4-15', 'HRZ0060403-Sep-9-15', 'HRZ0060403-c-Sep-3-15', 'HRZ0060408-Aug-20-15', 'HRZ0060408-Aug-21-15', 'HRZ0060408-Aug-26-15', 'HRZ0060408-Aug-28-15', 'HRZ0060408-Aug-31-15', 'HRZ0060408-Sep-15-15', 'HRZ0060408-Sep-16-15', 'HRZ0060408-Sep-17-15', 'HRZ0060408-Sep-18-15', 'HRZ0060408-Sep-4-15', 'HRZ0060408-Sep-9-15', 'HRZ0060408-c-Sep-3-15', 'HRZ0060503-Aug-20-15', 'HRZ0060503-Aug-21-15', 'HRZ0060503-Aug-26-15', 'HRZ0060503-Aug-28-15', 'HRZ0060503-Aug-31-15', 'HRZ0060503-Sep-15-15', 'HRZ0060503-Sep-16-15', 'HRZ0060503-Sep-17-15', 'HRZ0060503-Sep-18-15', 'HRZ0060503-Sep-4-15', 'HRZ0060503-Sep-9-15', 'HRZ0060503-c-Sep-3-15', 'HRZ0060508-Aug-20-15', 'HRZ0060508-Aug-21-15', 'HRZ0060508-Aug-26-15', 'HRZ0060508-Aug-28-15', 'HRZ0060508-Aug-31-15', 'HRZ0060508-Sep-15-15', 'HRZ0060508-Sep-16-15', 'HRZ0060508-Sep-18-15', 'HRZ0060508-Sep-4-15', 'HRZ0060508-Sep-9-15', 'HRZ0060508-c-Sep-3-15', 'HRZ0060603-Aug-20-15', 'HRZ0060603-Aug-21-15', 'HRZ0060603-Aug-26-15', 'HRZ0060603-Aug-28-15', 'HRZ0060603-Aug-31-15', 'HRZ0060603-Sep-15-15', 'HRZ0060603-Sep-16-15', 'HRZ0060603-Sep-17-15', 'HRZ0060603-Sep-18-15', 'HRZ0060603-Sep-4-15', 'HRZ0060603-Sep-9-15', 'HRZ0060603-c-Sep-3-15', 'HRZ0060608-Aug-20-15', 'HRZ0060608-Aug-21-15', 'HRZ0060608-Aug-26-15', 'HRZ0060608-Aug-28-15', 'HRZ0060608-Aug-31-15', 'HRZ0060608-Sep-15-15', 'HRZ0060608-Sep-16-15', 'HRZ0060608-Sep-17-15', 'HRZ0060608-Sep-18-15', 'HRZ0060608-Sep-4-15', 'HRZ0060608-Sep-9-15', 'HRZ0060608-c-Sep-3-15', 'HRZ0060703-Aug-20-15', 'HRZ0060703-Aug-21-15', 'HRZ0060703-Aug-26-15', 'HRZ0060703-Aug-28-15', 'HRZ0060703-Aug-31-15', 'HRZ0060703-Sep-15-15', 'HRZ0060703-Sep-16-15', 'HRZ0060703-Sep-17-15', 'HRZ0060703-Sep-18-15', 'HRZ0060703-Sep-4-15', 'HRZ0060703-Sep-9-15', 'HRZ0060703-c-Sep-3-15', 'HRZ0060708-Aug-20-15', 'HRZ0060708-Aug-21-15', 'HRZ0060708-Aug-26-15', 'HRZ0060708-Aug-28-15', 'HRZ0060708-Aug-31-15', 'HRZ0060708-Sep-15-15', 'HRZ0060708-Sep-16-15', 'HRZ0060708-Sep-17-15', 'HRZ0060708-Sep-18-15', 'HRZ0060708-Sep-4-15', 'HRZ0060708-Sep-9-15', 'HRZ0060803-Aug-20-15', 'HRZ0060803-Aug-21-15', 'HRZ0060803-Aug-26-15', 'HRZ0060803-Aug-28-15', 'HRZ0060803-Aug-31-15', 'HRZ0060803-Sep-15-15', 'HRZ0060803-Sep-16-15', 'HRZ0060803-Sep-17-15', 'HRZ0060803-Sep-18-15', 'HRZ0060803-Sep-4-15', 'HRZ0060803-Sep-9-15', 'HRZ0060803-c-Sep-3-15', 'HRZ0060808-Aug-20-15', 'HRZ0060808-Aug-21-15', 'HRZ0060808-Aug-26-15', 'HRZ0060808-Aug-28-15', 'HRZ0060808-Aug-31-15', 'HRZ0060808-Sep-15-15', 'HRZ0060808-Sep-16-15', 'HRZ0060808-Sep-17-15', 'HRZ0060808-Sep-18-15', 'HRZ0060808-Sep-4-15', 'HRZ0060808-Sep-9-15', 'HRZ0060808-c-Sep-3-15', 'HRZ0070203-Aug-20-15', 'HRZ0070203-Aug-21-15', 'HRZ0070203-Aug-26-15', 'HRZ0070203-Aug-28-15', 'HRZ0070203-Aug-31-15', 'HRZ0070203-Sep-15-15', 'HRZ0070203-Sep-16-15', 'HRZ0070203-Sep-17-15', 'HRZ0070203-Sep-18-15', 'HRZ0070203-Sep-4-15', 'HRZ0070203-Sep-9-15', 'HRZ0070203-c-Sep-3-15', 'HRZ0070208-Aug-20-15', 'HRZ0070208-Aug-21-15', 'HRZ0070208-Aug-26-15', 'HRZ0070208-Aug-28-15', 'HRZ0070208-Aug-31-15', 'HRZ0070208-Sep-15-15', 'HRZ0070208-Sep-16-15', 'HRZ0070208-Sep-17-15', 'HRZ0070208-Sep-18-15', 'HRZ0070208-Sep-4-15', 'HRZ0070208-Sep-9-15', 'HRZ0070208-c-Sep-3-15', 'HRZ0070303-Aug-20-15', 'HRZ0070303-Aug-21-15', 'HRZ0070303-Aug-26-15', 'HRZ0070303-Aug-28-15', 'HRZ0070303-Aug-31-15', 'HRZ0070303-Sep-15-15', 'HRZ0070303-Sep-16-15', 'HRZ0070303-Sep-17-15', 'HRZ0070303-Sep-18-15', 'HRZ0070303-Sep-4-15', 'HRZ0070303-Sep-9-15', 'HRZ0070303-c-Sep-3-15', 'HRZ0070308-Aug-20-15', 'HRZ0070308-Aug-21-15', 'HRZ0070308-Aug-26-15', 'HRZ0070308-Aug-28-15', 'HRZ0070308-Aug-31-15', 'HRZ0070308-Sep-15-15', 'HRZ0070308-Sep-16-15', 'HRZ0070308-Sep-17-15', 'HRZ0070308-Sep-18-15', 'HRZ0070308-Sep-4-15', 'HRZ0070308-Sep-9-15', 'HRZ0070308-c-Sep-3-15', 'HRZ0070403-Aug-20-15', 'HRZ0070403-Aug-21-15', 'HRZ0070403-Aug-26-15', 'HRZ0070403-Aug-28-15', 'HRZ0070403-Aug-31-15', 'HRZ0070403-Sep-15-15', 'HRZ0070403-Sep-16-15', 'HRZ0070403-Sep-17-15', 'HRZ0070403-Sep-18-15', 'HRZ0070403-Sep-4-15', 'HRZ0070403-Sep-9-15', 'HRZ0070403-c-Sep-3-15', 'HRZ0070408-Aug-20-15', 'HRZ0070408-Aug-21-15', 'HRZ0070408-Aug-26-15', 'HRZ0070408-Aug-28-15', 'HRZ0070408-Aug-31-15', 'HRZ0070408-Sep-15-15', 'HRZ0070408-Sep-16-15', 'HRZ0070408-Sep-17-15', 'HRZ0070408-Sep-18-15', 'HRZ0070408-Sep-4-15', 'HRZ0070408-Sep-9-15', 'HRZ0070408-c-Sep-3-15', 'HRZ0070503-Aug-20-15', 'HRZ0070503-Aug-21-15', 'HRZ0070503-Aug-26-15', 'HRZ0070503-Aug-28-15', 'HRZ0070503-Aug-31-15', 'HRZ0070503-Sep-15-15', 'HRZ0070503-Sep-16-15', 'HRZ0070503-Sep-17-15', 'HRZ0070503-Sep-18-15', 'HRZ0070503-Sep-4-15', 'HRZ0070503-Sep-9-15', 'HRZ0070503-c-Sep-3-15', 'HRZ0070508-Aug-20-15', 'HRZ0070508-Aug-21-15', 'HRZ0070508-Aug-26-15', 'HRZ0070508-Aug-28-15', 'HRZ0070508-Aug-31-15', 'HRZ0070508-Sep-15-15', 'HRZ0070508-Sep-16-15', 'HRZ0070508-Sep-17-15', 'HRZ0070508-Sep-18-15', 'HRZ0070508-Sep-4-15', 'HRZ0070508-Sep-9-15', 'HRZ0070508-c-Sep-3-15', 'HRZ0070603-Aug-20-15', 'HRZ0070603-Aug-21-15', 'HRZ0070603-Aug-26-15', 'HRZ0070603-Aug-28-15', 'HRZ0070603-Aug-31-15', 'HRZ0070603-Sep-15-15', 'HRZ0070603-Sep-16-15', 'HRZ0070603-Sep-17-15', 'HRZ0070603-Sep-18-15', 'HRZ0070603-Sep-4-15', 'HRZ0070603-Sep-9-15', 'HRZ0070603-c-Sep-3-15', 'HRZ0070608-Aug-20-15', 'HRZ0070608-Aug-21-15', 'HRZ0070608-Aug-26-15', 'HRZ0070608-Aug-28-15', 'HRZ0070608-Aug-31-15', 'HRZ0070608-Sep-15-15', 'HRZ0070608-Sep-16-15', 'HRZ0070608-Sep-17-15', 'HRZ0070608-Sep-18-15', 'HRZ0070608-Sep-4-15', 'HRZ0070608-Sep-9-15', 'HRZ0070608-c-Sep-3-15', 'HRZ0070703-Aug-20-15', 'HRZ0070703-Aug-21-15', 'HRZ0070703-Aug-26-15', 'HRZ0070703-Aug-28-15', 'HRZ0070703-Aug-31-15', 'HRZ0070703-Sep-15-15', 'HRZ0070703-Sep-16-15', 'HRZ0070703-Sep-17-15', 'HRZ0070703-Sep-18-15', 'HRZ0070703-Sep-4-15', 'HRZ0070703-Sep-9-15', 'HRZ0070703-c-Sep-3-15', 'HRZ0070708-Aug-20-15', 'HRZ0070708-Aug-21-15', 'HRZ0070708-Aug-26-15', 'HRZ0070708-Aug-28-15', 'HRZ0070708-Aug-31-15', 'HRZ0070708-Sep-15-15', 'HRZ0070708-Sep-16-15', 'HRZ0070708-Sep-17-15', 'HRZ0070708-Sep-18-15', 'HRZ0070708-Sep-4-15', 'HRZ0070708-Sep-9-15', 'HRZ0070708-c-Sep-3-15', 'HRZ0070803-Aug-20-15', 'HRZ0070803-Aug-21-15', 'HRZ0070803-Aug-26-15', 'HRZ0070803-Aug-28-15', 'HRZ0070803-Aug-31-15', 'HRZ0070803-Sep-15-15', 'HRZ0070803-Sep-16-15', 'HRZ0070803-Sep-17-15', 'HRZ0070803-Sep-18-15', 'HRZ0070803-Sep-4-15', 'HRZ0070803-Sep-9-15', 'HRZ0070803-c-Sep-3-15', 'HRZ0070808-Aug-20-15', 'HRZ0070808-Aug-21-15', 'HRZ0070808-Aug-26-15', 'HRZ0070808-Aug-28-15', 'HRZ0070808-Aug-31-15', 'HRZ0070808-Sep-15-15', 'HRZ0070808-Sep-16-15', 'HRZ0070808-Sep-17-15', 'HRZ0070808-Sep-18-15', 'HRZ0070808-Sep-4-15', 'HRZ0070808-Sep-9-15', 'HRZ0070808-c-Sep-3-15', 'HRZ0080203-Aug-20-15', 'HRZ0080203-Aug-21-15', 'HRZ0080203-Aug-26-15', 'HRZ0080203-Aug-28-15', 'HRZ0080203-Aug-31-15', 'HRZ0080203-Sep-15-15', 'HRZ0080203-Sep-16-15', 'HRZ0080203-Sep-17-15', 'HRZ0080203-Sep-18-15', 'HRZ0080203-Sep-4-15', 'HRZ0080203-Sep-9-15', 'HRZ0080203-c-Sep-3-15', 'HRZ0080208-Aug-20-15', 'HRZ0080208-Aug-21-15', 'HRZ0080208-Aug-26-15', 'HRZ0080208-Aug-28-15', 'HRZ0080208-Aug-31-15', 'HRZ0080208-Sep-15-15', 'HRZ0080208-Sep-16-15', 'HRZ0080208-Sep-17-15', 'HRZ0080208-Sep-18-15', 'HRZ0080208-Sep-4-15', 'HRZ0080208-Sep-9-15', 'HRZ0080208-c-Sep-3-15', 'HRZ0080303-Aug-20-15', 'HRZ0080303-Aug-21-15', 'HRZ0080303-Aug-26-15', 'HRZ0080303-Aug-28-15', 'HRZ0080303-Aug-31-15', 'HRZ0080303-Sep-15-15', 'HRZ0080303-Sep-16-15', 'HRZ0080303-Sep-17-15', 'HRZ0080303-Sep-18-15', 'HRZ0080303-Sep-4-15', 'HRZ0080303-Sep-9-15', 'HRZ0080303-c-Sep-3-15', 'HRZ0080308-Aug-20-15', 'HRZ0080308-Aug-21-15', 'HRZ0080308-Aug-26-15', 'HRZ0080308-Aug-28-15', 'HRZ0080308-Aug-31-15', 'HRZ0080308-Sep-15-15', 'HRZ0080308-Sep-16-15', 'HRZ0080308-Sep-17-15', 'HRZ0080308-Sep-18-15', 'HRZ0080308-Sep-4-15', 'HRZ0080308-Sep-9-15', 'HRZ0080308-c-Sep-3-15', 'HRZ0080403-Aug-20-15', 'HRZ0080403-Aug-21-15', 'HRZ0080403-Aug-26-15', 'HRZ0080403-Aug-28-15', 'HRZ0080403-Aug-31-15', 'HRZ0080403-Sep-15-15', 'HRZ0080403-Sep-16-15', 'HRZ0080403-Sep-17-15', 'HRZ0080403-Sep-18-15', 'HRZ0080403-Sep-4-15', 'HRZ0080403-Sep-9-15', 'HRZ0080403-c-Sep-3-15', 'HRZ0080408-Aug-20-15', 'HRZ0080408-Aug-21-15', 'HRZ0080408-Aug-26-15', 'HRZ0080408-Aug-28-15', 'HRZ0080408-Aug-31-15', 'HRZ0080408-Sep-15-15', 'HRZ0080408-Sep-16-15', 'HRZ0080408-Sep-17-15', 'HRZ0080408-Sep-18-15', 'HRZ0080408-Sep-4-15', 'HRZ0080408-Sep-9-15', 'HRZ0080408-c-Sep-3-15', 'HRZ0080503-Aug-20-15', 'HRZ0080503-Aug-21-15', 'HRZ0080503-Aug-26-15', 'HRZ0080503-Aug-28-15', 'HRZ0080503-Aug-31-15', 'HRZ0080503-Sep-15-15', 'HRZ0080503-Sep-16-15', 'HRZ0080503-Sep-17-15', 'HRZ0080503-Sep-18-15', 'HRZ0080503-Sep-4-15', 'HRZ0080503-Sep-9-15', 'HRZ0080503-c-Sep-3-15', 'HRZ0080508-Aug-20-15', 'HRZ0080508-Aug-21-15', 'HRZ0080508-Aug-26-15', 'HRZ0080508-Aug-28-15', 'HRZ0080508-Aug-31-15', 'HRZ0080508-Sep-15-15', 'HRZ0080508-Sep-16-15', 'HRZ0080508-Sep-17-15', 'HRZ0080508-Sep-18-15', 'HRZ0080508-Sep-4-15', 'HRZ0080508-Sep-9-15', 'HRZ0080508-c-Sep-3-15', 'HRZ0080603-Aug-20-15', 'HRZ0080603-Aug-21-15', 'HRZ0080603-Aug-26-15', 'HRZ0080603-Aug-28-15', 'HRZ0080603-Aug-31-15', 'HRZ0080603-Sep-15-15', 'HRZ0080603-Sep-16-15', 'HRZ0080603-Sep-17-15', 'HRZ0080603-Sep-18-15', 'HRZ0080603-Sep-4-15', 'HRZ0080603-Sep-9-15', 'HRZ0080603-c-Sep-3-15', 'HRZ0080608-Aug-20-15', 'HRZ0080608-Aug-21-15', 'HRZ0080608-Aug-26-15', 'HRZ0080608-Aug-28-15', 'HRZ0080608-Aug-31-15', 'HRZ0080608-Sep-15-15', 'HRZ0080608-Sep-16-15', 'HRZ0080608-Sep-17-15', 'HRZ0080608-Sep-18-15', 'HRZ0080608-Sep-4-15', 'HRZ0080608-Sep-9-15', 'HRZ0080608-c-Sep-3-15', 'HRZ0080703-Aug-20-15', 'HRZ0080703-Aug-21-15', 'HRZ0080703-Aug-26-15', 'HRZ0080703-Aug-28-15', 'HRZ0080703-Aug-31-15', 'HRZ0080703-Sep-15-15', 'HRZ0080703-Sep-16-15', 'HRZ0080703-Sep-17-15', 'HRZ0080703-Sep-18-15', 'HRZ0080703-Sep-4-15', 'HRZ0080703-Sep-9-15', 'HRZ0080703-c-Sep-3-15', 'HRZ0080708-Aug-20-15', 'HRZ0080708-Aug-21-15', 'HRZ0080708-Aug-26-15', 'HRZ0080708-Aug-28-15', 'HRZ0080708-Aug-31-15', 'HRZ0080708-Sep-15-15', 'HRZ0080708-Sep-16-15', 'HRZ0080708-Sep-17-15', 'HRZ0080708-Sep-18-15', 'HRZ0080708-Sep-4-15', 'HRZ0080708-Sep-9-15', 'HRZ0080708-c-Sep-3-15', 'HRZ0080803-Aug-20-15', 'HRZ0080803-Aug-21-15', 'HRZ0080803-Aug-26-15', 'HRZ0080803-Aug-28-15', 'HRZ0080803-Aug-31-15', 'HRZ0080803-Sep-15-15', 'HRZ0080803-Sep-16-15', 'HRZ0080803-Sep-17-15', 'HRZ0080803-Sep-18-15', 'HRZ0080803-Sep-4-15', 'HRZ0080803-Sep-9-15', 'HRZ0080803-c-Sep-3-15', 'HRZ0080808-Aug-20-15', 'HRZ0080808-Aug-21-15', 'HRZ0080808-Aug-26-15', 'HRZ0080808-Aug-28-15', 'HRZ0080808-Aug-31-15', 'HRZ0080808-Sep-15-15', 'HRZ0080808-Sep-16-15', 'HRZ0080808-Sep-17-15', 'HRZ0080808-Sep-18-15', 'HRZ0080808-Sep-4-15', 'HRZ0080808-Sep-9-15', 'HRZ0080808-c-Sep-3-15', 'HW08-06-83', 'IG50-21-31', 'IM90-62-42', 'IY97-58-23', 'JC-01-A', 'JC-01-B', 'JC-02-A', 'JC-02-B', 'JC-03-A', 'JC-03-B', 'JC-04-A', 'JC-04-B', 'JC-05', 'JC-06', 'JC-07', 'KG83-89-57', 'KV58-98-42', 'KX01-05-88', 'KX80-58-26', 'LD11-86-62', 'LJ72-06-68', 'LL20-60-86', 'LQ16-67-52', 'MA22-22-20', 'ME79-73-03', 'MF13-03-39', 'MI41-07-98', 'MP07-41-28', 'MP60-53-24', 'MW02-30-99', 'NA12878-01', 'NA12878-02', 'NA12879-01', 'NA12879-02', 'NA12882-01', 'NA12882-02', 'NA12890-01', 'NA12890-02', 'NE01-89-50', 'NHV-Q4-1', 'NHV-Q4-2', 'NHV-Q4-3', 'NHV-Q5-1', 'NHV-Q5-2', 'NHV-Q5-3', 'NHV-Q6-1', 'NHV-Q6-2', 'NHV-Q6-3', 'NI77-14-46', 'NIST', 'NJ39-19-29', 'NK96-09-10', 'NO56-89-30', 'NO95-83-22', 'NQ02-54-12', 'NQ80-95-73', 'OD79-34-69', 'OI11-03-15', 'OK43-50-43', 'OL19-92-31', 'OR60-37-19', 'OY30-67-72', 'PG00-90-14', 'PI92-98-79', 'PQ27-24-18', 'PQ56-06-86', 'PW97-59-48', 'QB93-89-00', 'QF20-58-40', 'RC76-05-11', 'RD31-53-29', 'RG69-02-63', 'RQ00-34-92', 'RT53-40-83', 'RX22-37-29', 'SF29-03-65', 'SG45-36-99', 'SS58-50-74', 'ST98-63-50', 'SU71-58-99', 'SX86-07-29', 'Streck0002-Sep-15-15', 'Streck0002-Sep-16-15', 'Streck0002-Sep-17-15', 'Streck0002-Sep-4-15', 'Streck0002-Sep-9-15', 'Streck0002-c-Sep-3-15', 'TD92-84-54', 'TG79-52-42', 'TN63-88-05', 'TY67-93-88', 'UI96-96-96', 'UJ43-08-54', 'UP11-02-86', 'US01-19-76', 'UW82-31-47', 'VB54-31-04', 'VB61-00-15', 'VG37-78-73', 'VJ95-82-66', 'VK18-09-72', 'VL73-74-59', 'VR89-80-02', 'VR99-08-16', 'VY36-96-32', 'WO44-13-06', 'WO64-26-85', 'WS04-26-25', 'WU16-76-81', 'WZ89-91-33', 'XE11-41-53', 'XI29-64-88', 'XK83-48-90', 'XQ71-96-42', 'XT12-13-13', 'XU28-26-81', 'XY76-78-25', 'YB79-06-28', 'YF53-87-14', 'YG15-25-68', 'YK13-41-23', 'YL80-02-83', 'YM64-86-39', 'YP06-22-79', 'YP77-91-57', 'YQ46-38-01', 'ZE80-53-92', 'ZG94-43-02', 'ZI89-88-24', 'ZK73-98-08', 'ZS29-63-16']

nans_exps = all_SNP[all_SNP.index.isin(afreq_nans)].EXPERIMENT_NAME.unique()
nans_exps

array(['BC150616-Analytical-2Hawk', 'CC150608-Pool2',
       'CM150603-Analytical-Chip-pool1', 'CC150630-HF-pool1',
       'KT150701a-pool2-Hawk', 'KT150701a-pool1-BigBird',
       'KT150701b-pool3', 'CM150701-Analytical-Chip-pool1',
       'KT150701b-pool2', 'BC150623-Analytical-2Falcon',
       'BC150603-Analytical-1BigBird', 'KT150716a-pool1-BB', 'Pazitpool1',
       'KT150716a-pool3-H', 'BC150803-Analytical-Chip28-3BigBird',
       'BC150803-Analytical-Chip29-1Falcon', 'KT150701b-pool1-BB',
       'Pazitpool3', 'BC150803-Analytical-Chip29-2Hawk',
       'BC150803-Analytical-Chip29-3Osprey',
       'BC150803-Analytical-Chip25-3Hawk',
       'BC150803-Analytical-Chip25-1BigBird',
       'BC150803-Analytical-Chip25-2Falcon', 'Pazitpool2', 'CCPool3',
       'CorinaTestRunPool2', 'CorinaTestRunPool3', 'CDC26AugPool2',
       'CDC26AugPool3', 'CM150804-Analytical-Chip-pool1',
       'CM150804-Analytical-Chip-pool2', 'CM150804-Analytical-Chip-pool5',
       'CM150804-Analytical-Chip-pool4', 'CM150804-Analytical-Chip-pool3',
       'PQ-CC2', 'BC150803-Analytical-Chip27-2BigBird',
       'BC150803-Analytical-Chip27-1Osprey',
       'BC150803-Analytical-Chip27-3Falcon', 'CorinaTestRun',
       'BC150803-Analytical-Chip21-1Hawk', 'BC150812-repool-F',
       'BC150803-Analytical-Chip21-2Osprey', 'CCPool2', 'CC2-Pool1',
       'CDC26AugPool1', 'CM31Aug2015Pool1', 'CM31Aug2015Pool2',
       'CM31Aug2015Pool3', 'CM1Sep2015Pool3', 'CM1Sep2015Pool2',
       'CM1Sep2015Pool1', 'CDC2Sep2015Pool2', 'CDC2Sep2015Pool3',
       'CDC8Sep2015Pool1', 'KT150831-pool1-BB', 'CDC8Sep2015Pool2',
       'CDC8Sep2015Pool3', 'CDC2Sep2015Pool1', 'KT150831-pool2-F',
       'KT150831-pool3-H', 'CYC11Sep2015Pool2', 'CYC11Sep2015Pool1',
       'BC150902-Chip30-16DOAR', 'BC150902-Chip30-ContamSmpls-Trovagene',
       'PS16SEP2015P3', 'PS16SEP2015P1', 'PS16SEP2015P2',
       'BC150902-Chip32-1BigBird', 'BC150902-Chip32-2BigBird',
       'CYC11Sep2015Pool3', 'PS02SEP2015P3', 'CYC04Sep2015Pool3',
       'CYC04Sep2015Pool2', 'PS02SEP2015P2', 'CYC04Sep2015Pool1',
       'JC150915-Pool1', 'PS02SEP2015P1', 'StanfordPedsChip3-pool3',
       'JC150915-Pool3', 'StanfordPedsChip1-pool3',
       'StanfordPedsChip5-pool3', 'StanfordPedsChip7-pool3',
       'StanfordPedsChip4-pool3', 'StanfordPedsChip2-pool3',
       'StanfordPedsChipRedo-pool2', 'KT151022-Chip3-2-Osprey',
       'KT151022-Chip3-3-BigBird', 'Experiment1_Pool3_8.4pM_Input'], dtype=object)

sorted(df_allSmpl.ix[df_allSmpl.EXPERIMENT.isin(nans_exps)].RUN_NAME.unique())

['150605_M02587_0102_000000000-AE6CC',
 '150608_M02587_0103_000000000-AG0HK',
 '150619_M03241_0070_000000000-AGBAN',
 '150619_M03828_0011_000000000-AGB7D',
 '150629_M03206_0073_000000000-AGBCB',
 '150703_M03206_0075_000000000-AH332',
 '150707_M02587_0112_000000000-AH6B2',
 '150707_M03241_0075_000000000-AH2MR',
 '150709_M03241_0077_000000000-AGBAT',
 '150716_M03206_0081_000000000-AH2B9',
 '150716_M03241_0081_000000000-AH62D',
 '150721_M02587_0116_AHDT6',
 '150724_M02587_0117_000000000-AHF44',
 '150724_M03241_0083_000000000-AHCJ4',
 '150805_M02587_0119_AHGHJ',
 '150805_M03206_0085_AHJCK',
 '150805_M03241_0086_AHG81',
 '150805_M03828_0025_AHGRJ',
 '150806_M02587_0120_000000000-AHHK1',
 '150806_M02587_0120_AHHK1',
 '150806_M03206_0086_AHJV0',
 '150806_M03241_0087_AHHK0',
 '150806_M03828_0026_AHGHP',
 '150810_M02587_0121_AHGAG',
 '150810_M03206_0087_AHCCA',
 '150810_M03241_0088_AHG0D',
 '150810_M03828_0027_AHGMB',
 '150813_M02587_0122_AHUHY',
 '150813_M03206_0088_AHUC8',
 '150813_M03828_0028_AHHK3',
 '150817_M02587_0123_AHU85',
 '150817_M03241_0091_AHUNL',
 '150817_M03828_0030_AHU9E',
 '150818_M03206_0090_AHUA2',
 '150820_M03206_0091_AHJPM',
 '150820_M03241_0092_AHHJG',
 '150820_M03828_0031_AHJT1',
 '150821_M03206_0092_AHFYH',
 '150821_M03241_0093_AJ818',
 '150821_M03828_0032_AJ8KM',
 '150826_M02587_0124_AJ93R',
 '150826_M03206_0093_AJ8KB',
 '150826_M03828_0033_AJ2NT',
 '150828_M03206_0094_AHHMG',
 '150828_M03241_0094_AHJVV',
 '150828_M03828_0034_AHJRR',
 '150831_M03206_0095_AHJUY',
 '150831_M03828_0035_AHHJH',
 '150901_M03828_0036_AHJRM',
 '150903_M02587_0125_AHFNL',
 '150903_M03206_0096_AHHM6',
 '150903_M03828_0037_AHGJ5',
 '150904_M02587_0126_AJ4R0',
 '150904_M03206_0097_AJ4RN',
 '150904_M03241_0095_AJ513',
 '150909_M03206_0098_AJ524',
 '150909_M03241_0096_AJ6DL',
 '150909_M03828_0038_AJ4PH',
 '150910_M02587_0127_AJ933',
 '150910_M03206_0099_AJ3MD',
 '150910_M03241_0097_AJ96F',
 '150910_M03828_0039_AJ3PT',
 '150911_M03828_0040-AJ8JH_09-14-2015-12h50m',
 '150915_M02587_0129_AJ8LE',
 '150915_M03206_0100_AJGB3',
 '150915_M03241_0098_AJ4WN',
 '150915_M03828_0041_AJ4R8',
 '150916_M02587_0130_AGGYA',
 '150916_M03206_0101_AJ517',
 '150916_M03241_0099_AJ4WA',
 '150916_M03828_0042_AJ4RL',
 '150917_M03206_0102_AJ50Y',
 '150917_M03241_0100_AJ68Y',
 '150917_M03828_0043_AJ4W7',
 '150918_M02587_0131_AJ80U',
 '150918_M03206_0103_AJ4R4',
 '150918_M03241_0101_AJ5KG',
 '150918_M03828_0044_AJ4W3',
 '150922_M03241_0102_AJ4B0',
 '150925_M03241_0104_AJ96T',
 '150926_M03241_0105_AJ6D2',
 '150928_M03828_0049_AHHT2',
 '151002_M02587_0138_AHEGR',
 '151005_M03241_0111_AHCJD',
 '151006_M02587_0140_AHEGT',
 '151012_M03241_0117_AJVUE',
 '151102_M02587_0157_AJWBY',
 '151102_M03828_0068_AJWPC',
 '160108_M03241_0150_ALGA8']

t_init = timeit.default_timer()
all_SNP = pd.read_csv(seq01_SNP, sep='$')#, verbose=True)
all_SNP.info()
all_SNP.set_index('SAMPLE_NAME', inplace=True)
print_exec_time(t_init)

<class 'pandas.core.frame.DataFrame'>
RangeIndex: 3388573 entries, 0 to 3388572
Data columns (total 36 columns):
ID                     float64
RUN_ID                 float64
EXPERIMENT_NAME        object
SAMPLE_NAME            object
AMPLICON_NAME          object
SNP_NAME               object
CHROMOSOME             object
POSITION               float64
REF                    object
ALT                    object
REF_COUNT              float64
ALT_COUNT              float64
REF_FREQ               float64
ALT_FREQ               float64
REF_ALT_READS          float64
ALL_READS              float64
ERR_COUNT              float64
ERR_FREQ_TOTAL         float64
CHROMOSOME_MOCK        object
POSITION_MOCK          float64
DONORFREQUENCY         float64
ALT_FREQ_TOTAL         float64
REF_FREQ_TOTAL         float64
DONORFREQUENCYTOTAL    float64
RECIPIENTALLELE        object
DONORALLELE            object
SUBSTITUTION           object
SNPDIRECTION           object
SAMPLE_PROJECT         float64
UNIQUEID               object
RELATIVE_COVERAGE      float64
REFALTFRACTION         float64
SNPPASSQC              bool
BACKGROUND             float64
ADJUSTEDFREQUENCY      float64
RECIPIENTGENOCALL      object
dtypes: bool(1), float64(21), object(14)
memory usage: 908.1+ MB
Execution time: 24998.14492 ms 

t_init = timeit.default_timer()
df_allSmpl = pd.read_csv(seq01_smpl, verbose=True, sep='$')#error_bad_lines=False)
df_allSmpl.sort_index(inplace=True, axis=1)
df_allSmpl.set_index('SAMPLE_NAME', inplace=True)
df_allSmpl = convert_result_to_float(df_allSmpl,'PCT_DD_CFDNA', div=100)
# df_allSmpl = convert_result_to_float(df_allSmpl, 'TOTAL_READS')
df_allSmpl.info(verbose=True)
print_exec_time(t_init) 

Tokenization took: 42.89 ms
Type conversion took: 100.52 ms
Parser memory cleanup took: 0.03 ms
Tokenization took: 23.84 ms
Type conversion took: 54.58 ms
Parser memory cleanup took: 0.01 ms
<class 'pandas.core.frame.DataFrame'>
Index: 16212 entries, HRZ-7-7-8ng-16054E4-400E4 to SL303-Oct-28-15
Data columns (total 103 columns):
AA_BARCODE_NAME                   object
AA_BARCODE_WELL                   object
AA_INDEX                          object
ACCEPTED_BY                       object
ACCEPTED_DATE                     object
ACCESSIONED_BY                    object
ACCESSION_NO                      object
ACCESSION_SESSION_ID              object
ACCESS_ARRAY_NUM                  float64
ANALYSIS_NUM                      object
BC_SESSION_ID                     float64
BLOOD_VOL                         float64
CFDNA_PROCESSED                   object
CFDNA_PROCESS_DATE                float64
CLUSTER_DENSITY                   float64
COLLECTION_DATE                   object
COLLECTION_TIME                   object
COMMENTS                          object
DATE_ACCESSIONED                  object
DATE_SEQUENCED                    object
DAYS_SINCE_COLLECTION             object
DD_CFDNA_PASS_QC_N_DETECT_RPT     object
DESCRIPTION                       float64
DONOR_DNA_SOURCE                  object
DONOR_RELATIONSHIP_DESCRIPTION    object
DONOR_TYPE                        object
EXPERIMENT                        object
EXP_DATE                          object
FRACDETECTABLE                    object
ID                                float64
INVESTIGATOR                      object
LAB                               object
LIBRARY_ID                        float64
LIVING_RELATED                    object
LIVING_RELATED_DESC               object
MANIFEST_BARCODE_LABEL            object
MASS_INPUT                        object
ORGAN                             object
PATIENT                           object
PATIENT_STUDY_ID                  object
PAXGENE_WEIGHT                    float64
PCT_DD_CFDNA                      float64
PCT_DD_CFDNA_PASS_QC              object
PCT_DD_CFDNA_PASS_QC_N_DETECT     object
PCT_SPIKE_DPCR                    float64
PF                                object
PLASMA_INPUT_VOL                  float64
POOL_ID                           float64
PRE_AMP_NUM                       float64
PROCESS_DATE                      object
PROJECT_NAME                      object
QC_BACKGROUND                     object
QC_BACKGROUND_VAL                 object
QC_CONTAM                         object
QC_CONTAM_NON_ZR_RECHOMO_SNPS     object
QC_DD_HIGH                        object
QC_DD_HIGH_PERCENT_RECIPHET       object
QC_LOW_INPUT                      object
QC_LOW_INPUT_2                    object
QC_LOW_INPUT_2_PCT_RECIPHET       object
QC_LOW_INPUT_COVVAR_VALUE         object
QC_RESULT                         object
QC_SUFFICIENT_SNPS                object
QC_SUFFICIENT_SNPS_RECHOMO_NUM    object
RD_SAMPLE_TYPE                    object
READS_PASS_QC                     float64
RECIPIENTHETDIVISION              object
RECIPIENT_DNA_SOURCE              object
REPORTABLE                        object
RND_PROJECT_NAME                  object
RUN_DATE                          object
RUN_ID                            object
RUN_NAME                          object
RUN_QC                            object
SAMPLENAME                        object
SAMPLE_ID                         object
SAMPLE_STATUS                     object
SAMPLE_WELL                       object
SEQUENCER                         object
SNPS_PASS_QC                      float64
SNPS_PASS_QC_PCT                  object
SNPS_RECIPHET                     object
SNPS_RECIPHET_PCT                 object
SNPS_TRIALLELIC                   object
SNPS_TRIALLELIC_PCT               object
SNPS_WITH_INSUFFICIENT_READS      object
SNPS_W_INSUFFICIENT_READS_PCT     object
STATUS                            object
STOCK_DNA_CONC                    float64
STREK_LOT_NUM                     object
STUDY_NAME                        object
TARGETED_PCT_SPIKE                float64
TEST_NAME                         object
TOTAL_READS                       float64
TTP_FILE                          object
TTP_FILE_NUM                      object
TUBE_COMMENTS                     object
TUBE_EID                          object
TUBE_EID_SEQ                      float64
TUBE_SIZE                         object
TUBE_TYPE                         object
TUBE_TYPE_NAME                    object
VISIT_ID                          float64
dtypes: float64(21), object(82)
memory usage: 12.9+ MB
Execution time: 327.34276 ms 

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/IPython/core/interactiveshell.py:2717: DtypeWarning:

Columns (6,7,9,16,36,38,47,51,55,61,64,66,76,79,100,102) have mixed types. Specify dtype option on import or set low_memory=False.

# all_SNP.corr().to_csv('all_SNP_pandas_correlation_matrix.csv')

df_all_AV = pd.read_clipboard()
df_all_AV.info()

<class 'pandas.core.frame.DataFrame'>
Int64Index: 180 entries, 645 to 305
Data columns (total 12 columns):
Sample_Name          180 non-null object
Sample_Name_short    180 non-null object
AA_Chip_Number       180 non-null int64
HRZ_Panel            93 non-null float64
Input_ng             93 non-null float64
dd_cfDNA             180 non-null float64
dd_cfDNA_Pass_QC     180 non-null float64
QC_Result            180 non-null object
fracDetectable       180 non-null float64
Is_Streck            180 non-null bool
mean                 1 non-null object
median               1 non-null object
dtypes: bool(1), float64(5), int64(1), object(5)
memory usage: 17.1+ KB

df_all = df_allSmpl[df_allSmpl.index.isin(AV_all_smpls_list)]
df_all.info()

<class 'pandas.core.frame.DataFrame'>
Index: 1927 entries, AJ61-75-92-Nov-4-15 to SL303-Oct-28-15
Columns: 103 entries, AA_BARCODE_NAME to VISIT_ID
dtypes: float64(21), object(82)
memory usage: 1.5+ MB

df_all_AV_blanks = df_all.copy()

Data structure cleaning

df_all = df_allSmpl[df_allSmpl.STUDY_NAME=='DART']
df_all.info()

<class 'pandas.core.frame.DataFrame'>
Index: 2059 entries, AH98-39-97a-2-89688 to ZE31-84-54a-2-89669
Columns: 103 entries, AA_BARCODE_NAME to VISIT_ID
dtypes: float64(21), object(82)
memory usage: 1.6+ MB

# df_all_KT = df_allSmpl[df_allSmpl.index.str.startswith('KT170203')]
# df_all_KT = pd.read_csv(KT_smpl, sep='\t')
# df_all_KT.info()
# df_allSmpl.QC_RESULT

series_all_DART = pd.read_csv(DART_lock2_smpls)
series_all_DART.info()
all_DART_list = series_all_DART.Sample_Name.values

### DART FILTER
# df_all_DART = df_allSmpl[df_allSmpl.index.str.startswith(tuple(series_all_DART.Sample_Name.values))]
df_all_DART = df_allSmpl[(df_allSmpl['TUBE_EID'].isin(all_DART_list)) 
                         & (df_allSmpl.QC_RESULT)]

<class 'pandas.core.frame.DataFrame'>
RangeIndex: 1470 entries, 0 to 1469
Data columns (total 1 columns):
Sample_Name    1470 non-null object
dtypes: object(1)
memory usage: 11.6+ KB

df_bySNP = all_SNP[all_SNP.index.isin(df_all.index)]# & (all_SNP.SNPPASSQC)]
df_bySNP.info(verbose=True)

<class 'pandas.core.frame.DataFrame'>
Index: 493905 entries, HRZ-7-6-60-Oct-1-15 to NG63-03-05b-2-40184
Data columns (total 35 columns):
ID                     493905 non-null float64
RUN_ID                 493905 non-null float64
EXPERIMENT_NAME        493905 non-null object
AMPLICON_NAME          493905 non-null object
SNP_NAME               493905 non-null object
CHROMOSOME             493905 non-null object
POSITION               493905 non-null float64
REF                    493905 non-null object
ALT                    493905 non-null object
REF_COUNT              493905 non-null float64
ALT_COUNT              493905 non-null float64
REF_FREQ               493905 non-null float64
ALT_FREQ               493905 non-null float64
REF_ALT_READS          493905 non-null float64
ALL_READS              493905 non-null float64
ERR_COUNT              493905 non-null float64
ERR_FREQ_TOTAL         493905 non-null float64
CHROMOSOME_MOCK        493905 non-null object
POSITION_MOCK          493905 non-null float64
DONORFREQUENCY         493905 non-null float64
ALT_FREQ_TOTAL         493905 non-null float64
REF_FREQ_TOTAL         493905 non-null float64
DONORFREQUENCYTOTAL    493905 non-null float64
RECIPIENTALLELE        493905 non-null object
DONORALLELE            493905 non-null object
SUBSTITUTION           493905 non-null object
SNPDIRECTION           493905 non-null object
SAMPLE_PROJECT         0 non-null float64
UNIQUEID               493905 non-null object
RELATIVE_COVERAGE      493905 non-null float64
REFALTFRACTION         493905 non-null float64
SNPPASSQC              493905 non-null bool
BACKGROUND             329306 non-null float64
ADJUSTEDFREQUENCY      329306 non-null float64
RECIPIENTGENOCALL      445042 non-null object
dtypes: bool(1), float64(21), object(13)
memory usage: 132.4+ MB

distribute number of sample results

nans = nan_adjFreq_snps.iloc[:,0].values
nans

array(['AVBlank-Aug-21-15', 'AVBlank-Aug-26-15', 'AVBlank-Aug-28-15',
       'AVBlank-Aug-31-15', 'AVBlank-Sep-15-15', 'AVBlank-Sep-16-15',
       'AVBlank-Sep-18-15', 'AVBlank-Sep-4-15', 'AVBlank-Sep-9-15',
       'AVStreck0001-Aug-20-15', 'AVStreck0001-Aug-21-15',
       'AVStreck0001-Aug-26-15', 'AVStreck0001-Aug-28-15',
       'AVStreck0001-Aug-31-15', 'AVStreck0001-Sep-18-15',
       'Streck0002-Sep-15-15', 'Streck0002-Sep-16-15',
       'Streck0002-Sep-4-15', 'Streck0002-Sep-9-15'], dtype=object)

# df_all.to_csv('av_blanks_sample_stats.csv')

df_bySNP

	ID	RUN_ID	EXPERIMENT_NAME	AMPLICON_NAME	SNP_NAME	CHROMOSOME	POSITION	REF	ALT	REF_COUNT	ALT_COUNT	REF_FREQ	ALT_FREQ	REF_ALT_READS	ALL_READS	ERR_COUNT	ERR_FREQ_TOTAL	CHROMOSOME_MOCK	POSITION_MOCK	DONORFREQUENCY	ALT_FREQ_TOTAL	REF_FREQ_TOTAL	DONORFREQUENCYTOTAL	RECIPIENTALLELE	DONORALLELE	SUBSTITUTION	SNPDIRECTION	SAMPLE_PROJECT	UNIQUEID	RELATIVE_COVERAGE	REFALTFRACTION	SNPPASSQC	BACKGROUND	ADJUSTEDFREQUENCY	RECIPIENTGENOCALL
SAMPLE_NAME
HRZ-8-1-60-Oct-1-15	2617.0	195.0	CDC30SepPool1	aIISNP102	IISNP102	chr1	154744807.0	C	G	4.0	12710.0	0.000315	0.999685	12714.0	12714.0	0.0	0.000000	chr1_154744236_154745348	572.0	0.000315	0.999685	0.000315	0.000315	G	C	GC	IISNP102 GC	NaN	HRZ-8-1-60-Oct-1-15	1.505214	1.000000	True	0.000165	0.000150	Recipient Homo
HRZ-8-1-60-Oct-1-15	2618.0	195.0	CDC30SepPool1	aIISNP3	IISNP3	chr1	160786670.0	A	G	13694.0	2.0	0.999854	0.000146	13696.0	13697.0	1.0	0.000073	chr1_160786113_160787219	558.0	0.000146	0.000146	0.999781	0.000146	A	G	AG	IISNP3 AG	NaN	HRZ-8-1-60-Oct-1-15	1.621592	0.999927	True	0.001835	-0.001689	Recipient Homo
HRZ-8-1-60-Oct-1-15	2619.0	195.0	CDC30SepPool1	aIISNP214	IISNP214	chr1	161019040.0	G	C	5545.0	5243.0	0.513997	0.486003	10788.0	10790.0	2.0	0.000185	chr1_161018464_161019586	577.0	0.486003	0.485913	0.513902	0.485913	G	C	GC	IISNP214 GC	NaN	HRZ-8-1-60-Oct-1-15	1.277431	0.999815	True	0.000165	0.485838	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2620.0	195.0	CDC30SepPool1	aIISNP242	IISNP242	chr1	179876988.0	C	G	6129.0	5884.0	0.510197	0.489803	12013.0	12014.0	1.0	0.000083	chr1_179876419_179877532	570.0	0.489803	0.489762	0.510155	0.489762	C	G	CG	IISNP242 CG	NaN	HRZ-8-1-60-Oct-1-15	1.422341	0.999917	True	0.000167	0.489636	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2621.0	195.0	CDC30SepPool1	aIISNP264	IISNP264	chr1	205554085.0	G	C	4941.0	5512.0	0.472687	0.527313	10453.0	10460.0	7.0	0.000669	chr1_205553518_205554618	568.0	0.472687	0.526960	0.472371	0.472371	C	G	CG	IISNP264 CG	NaN	HRZ-8-1-60-Oct-1-15	1.238362	0.999331	True	0.000167	0.472521	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2622.0	195.0	CDC30SepPool1	aIISNP257	IISNP257	chr1	214837110.0	C	G	5220.0	5200.0	0.500960	0.499040	10420.0	10424.0	4.0	0.000384	chr1_214836531_214837646	580.0	0.499040	0.498849	0.500767	0.498849	C	G	CG	IISNP257 CG	NaN	HRZ-8-1-60-Oct-1-15	1.234100	0.999616	True	0.000167	0.498874	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2623.0	195.0	CDC30SepPool1	aIISNP19	IISNP19	chr1	233448413.0	C	T	5311.0	3129.0	0.629265	0.370735	8440.0	8443.0	3.0	0.000355	chr1_233447873_233448982	541.0	0.370735	0.370603	0.629042	0.370603	C	T	CT	IISNP19 CT	NaN	HRZ-8-1-60-Oct-1-15	0.999569	0.999645	True	0.001077	0.369658	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2624.0	195.0	CDC30SepPool1	aIISNP238	IISNP238	chr1	234041422.0	G	C	6089.0	6559.0	0.481420	0.518580	12648.0	12651.0	3.0	0.000237	chr1_234040863_234041981	560.0	0.481420	0.518457	0.481306	0.481306	C	G	CG	IISNP238 CG	NaN	HRZ-8-1-60-Oct-1-15	1.497755	0.999763	True	0.000167	0.481253	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2625.0	195.0	CDC30SepPool1	aIISNP104	IISNP104	chr1	236381825.0	G	C	2500.0	2585.0	0.491642	0.508358	5085.0	5085.0	0.0	0.000000	chr1_236381266_236382387	560.0	0.491642	0.508358	0.491642	0.491642	C	G	CG	IISNP104 CG	NaN	HRZ-8-1-60-Oct-1-15	0.602015	1.000000	True	0.000167	0.491475	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2626.0	195.0	CDC30SepPool1	aIISNP83	IISNP83	chr1	239881926.0	A	G	6552.0	6.0	0.999085	0.000915	6558.0	6561.0	3.0	0.000457	chr1_239881353_239882471	574.0	0.000915	0.000914	0.998628	0.000914	A	G	AG	IISNP83 AG	NaN	HRZ-8-1-60-Oct-1-15	0.776759	0.999543	True	0.001835	-0.000920	Recipient Homo
HRZ-8-1-60-Oct-1-15	2627.0	195.0	CDC30SepPool1	aIISNP131	IISNP131	chr1	247752019.0	G	C	4770.0	1.0	0.999790	0.000210	4771.0	4772.0	1.0	0.000210	chr1_247751483_247752601	537.0	0.000210	0.000210	0.999581	0.000210	G	C	GC	IISNP131 GC	NaN	HRZ-8-1-60-Oct-1-15	0.564958	0.999790	True	0.000165	0.000045	Recipient Homo
HRZ-8-1-60-Oct-1-15	2628.0	195.0	CDC30SepPool1	aIISNP121	IISNP121	chr10	5136651.0	C	G	6704.0	2.0	0.999702	0.000298	6706.0	6709.0	3.0	0.000447	chr10_5136059_5137186	593.0	0.000298	0.000298	0.999255	0.000298	C	G	CG	IISNP121 CG	NaN	HRZ-8-1-60-Oct-1-15	0.794280	0.999553	True	0.000167	0.000132	Recipient Homo
HRZ-8-1-60-Oct-1-15	2629.0	195.0	CDC30SepPool1	aIISNP244	IISNP244	chr10	21414892.0	C	G	10468.0	0.0	1.000000	0.000000	10468.0	10468.0	0.0	0.000000	chr10_21414322_21415442	571.0	0.000000	0.000000	1.000000	0.000000	C	G	CG	IISNP244 CG	NaN	HRZ-8-1-60-Oct-1-15	1.239309	1.000000	True	0.000167	-0.000167	Recipient Homo
HRZ-8-1-60-Oct-1-15	2630.0	195.0	CDC30SepPool1	aIISNP114	IISNP114	chr10	24873369.0	C	G	1881.0	1982.0	0.486927	0.513073	3863.0	3998.0	135.0	0.033767	chr10_24872787_24873906	583.0	0.486927	0.495748	0.470485	0.470485	G	C	GC	IISNP114 GC	NaN	HRZ-8-1-60-Oct-1-15	0.473324	0.966233	True	0.000165	0.486763	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2631.0	195.0	CDC30SepPool1	aIISNP178	IISNP178	chr10	25701341.0	C	G	0.0	4584.0	0.000000	1.000000	4584.0	4586.0	2.0	0.000436	chr10_25700758_25701869	584.0	0.000000	0.999564	0.000000	0.000000	G	C	GC	IISNP178 GC	NaN	HRZ-8-1-60-Oct-1-15	0.542938	0.999564	True	0.000165	-0.000165	Recipient Homo
HRZ-8-1-60-Oct-1-15	2632.0	195.0	CDC30SepPool1	aIISNP181	IISNP181	chr10	38344700.0	C	G	3414.0	3667.0	0.482135	0.517865	7081.0	7084.0	3.0	0.000423	chr10_38344113_38345242	588.0	0.482135	0.517645	0.481931	0.481931	G	C	GC	IISNP181 GC	NaN	HRZ-8-1-60-Oct-1-15	0.838677	0.999577	True	0.000165	0.481971	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2633.0	195.0	CDC30SepPool1	aIISNP215	IISNP215	chr10	69934258.0	C	G	4665.0	1.0	0.999786	0.000214	4666.0	4670.0	4.0	0.000857	chr10_69933675_69934782	584.0	0.000214	0.000214	0.998929	0.000214	C	G	CG	IISNP215 CG	NaN	HRZ-8-1-60-Oct-1-15	0.552883	0.999143	True	0.000167	0.000048	Recipient Homo
HRZ-8-1-60-Oct-1-15	2634.0	195.0	CDC30SepPool1	aIISNP165	IISNP165	chr10	90342837.0	C	G	10510.0	0.0	1.000000	0.000000	10510.0	10515.0	5.0	0.000476	chr10_90342263_90343376	575.0	0.000000	0.000000	0.999524	0.000000	C	G	CG	IISNP165 CG	NaN	HRZ-8-1-60-Oct-1-15	1.244874	0.999524	True	0.000167	-0.000167	Recipient Homo
HRZ-8-1-60-Oct-1-15	2635.0	195.0	CDC30SepPool1	aIISNP35	IISNP35	chr10	97172595.0	T	C	11830.0	4.0	0.999662	0.000338	11834.0	11835.0	1.0	0.000084	chr10_97172060_97173166	536.0	0.000338	0.000338	0.999578	0.000338	T	C	TC	IISNP35 TC	NaN	HRZ-8-1-60-Oct-1-15	1.401149	0.999916	True	0.001818	-0.001480	Recipient Homo
HRZ-8-1-60-Oct-1-15	2636.0	195.0	CDC30SepPool1	aIISNP154	IISNP154	chr10	99439541.0	G	C	13242.0	4.0	0.999698	0.000302	13246.0	13248.0	2.0	0.000151	chr10_99438974_99440086	568.0	0.000302	0.000302	0.999547	0.000302	G	C	GC	IISNP154 GC	NaN	HRZ-8-1-60-Oct-1-15	1.568434	0.999849	True	0.000165	0.000137	Recipient Homo
HRZ-8-1-60-Oct-1-15	2637.0	195.0	CDC30SepPool1	aIISNP256	IISNP256	chr10	114053546.0	C	G	0.0	4743.0	0.000000	1.000000	4743.0	4743.0	0.0	0.000000	chr10_114052989_114054096	558.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP256 GC	NaN	HRZ-8-1-60-Oct-1-15	0.561525	1.000000	True	0.000165	-0.000165	Recipient Homo
HRZ-8-1-60-Oct-1-15	2638.0	195.0	CDC30SepPool1	aIISNP189	IISNP189	chr10	126714714.0	G	C	5653.0	5210.0	0.520390	0.479610	10863.0	10867.0	4.0	0.000368	chr10_126714134_126715248	581.0	0.479610	0.479433	0.520199	0.479433	G	C	GC	IISNP189 GC	NaN	HRZ-8-1-60-Oct-1-15	1.286547	0.999632	True	0.000165	0.479445	Recipient Hetero
HRZ-8-1-60-Oct-1-15	2639.0	195.0	CDC30SepPool1	aIISNP204	IISNP204	chr10	128019025.0	C	G	6.0	13964.0	0.000429	0.999571	13970.0	13972.0	2.0	0.000143	chr10_128018457_128019577	569.0	0.000429	0.999427	0.000429	0.000429	G	C	GC	IISNP204 GC	NaN	HRZ-8-1-60-Oct-1-15	1.654149	0.999857	True	0.000165	0.000265	Recipient Homo
HRZ-8-1-8-Oct-1-15	2905.0	195.0	CDC30SepPool1	aIISNP24	IISNP24	chr11	5099393.0	T	A	13536.0	4.0	0.999705	0.000295	13540.0	13544.0	4.0	0.000295	chr11_5098828_5099937	566.0	0.000295	0.000295	0.999409	0.000295	T	A	TA	IISNP24 TA	NaN	HRZ-8-1-8-Oct-1-15	1.910967	0.999705	True	0.000267	0.000029	Recipient Homo
HRZ-8-1-8-Oct-1-15	2906.0	195.0	CDC30SepPool1	aIISNP38	IISNP38	chr11	5709028.0	C	T	5390.0	5015.0	0.518020	0.481980	10405.0	10405.0	0.0	0.000000	chr11_5708471_5709577	558.0	0.481980	0.481980	0.518020	0.481980	C	T	CT	IISNP38 CT	NaN	HRZ-8-1-8-Oct-1-15	1.468075	1.000000	True	0.001140	0.480840	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2907.0	195.0	CDC30SepPool1	aIISNP206	IISNP206	chr11	8947283.0	G	C	4028.0	3817.0	0.513448	0.486552	7845.0	7847.0	2.0	0.000255	chr11_8946706_8947820	578.0	0.486552	0.486428	0.513317	0.486428	G	C	GC	IISNP206 GC	NaN	HRZ-8-1-8-Oct-1-15	1.107159	0.999745	True	0.000163	0.486389	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2908.0	195.0	CDC30SepPool1	aIISNP84	IISNP84	chr11	11096221.0	C	T	3913.0	4532.0	0.463351	0.536649	8445.0	8450.0	5.0	0.000592	chr11_11095660_11096769	562.0	0.463351	0.536331	0.463077	0.463077	T	C	TC	IISNP84 TC	NaN	HRZ-8-1-8-Oct-1-15	1.192238	0.999408	True	0.001852	0.461499	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2909.0	195.0	CDC30SepPool1	aIISNP109	IISNP109	chr11	11292700.0	G	C	11055.0	2.0	0.999819	0.000181	11057.0	11063.0	6.0	0.000542	chr11_11292148_11293259	553.0	0.000181	0.000181	0.999277	0.000181	G	C	GC	IISNP109 GC	NaN	HRZ-8-1-8-Oct-1-15	1.560915	0.999458	True	0.000163	0.000018	Recipient Homo
HRZ-8-1-8-Oct-1-15	2910.0	195.0	CDC30SepPool1	aIISNP107	IISNP107	chr11	17519742.0	C	G	0.0	2886.0	0.000000	1.000000	2886.0	2886.0	0.0	0.000000	chr11_17519170_17520279	573.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP107 GC	NaN	HRZ-8-1-8-Oct-1-15	0.407195	1.000000	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2911.0	195.0	CDC30SepPool1	aIISNP127	IISNP127	chr11	57799371.0	G	C	0.0	5327.0	0.000000	1.000000	5327.0	5327.0	0.0	0.000000	chr11_57798787_57799916	585.0	0.000000	1.000000	0.000000	0.000000	C	G	CG	IISNP127 CG	NaN	HRZ-8-1-8-Oct-1-15	0.751604	1.000000	True	0.000151	-0.000151	Recipient Homo
HRZ-8-1-8-Oct-1-15	2912.0	195.0	CDC30SepPool1	aIISNP99	IISNP99	chr11	58318619.0	C	G	4716.0	4715.0	0.500053	0.499947	9431.0	9432.0	1.0	0.000106	chr11_58318053_58319181	567.0	0.499947	0.499894	0.500000	0.499894	C	G	CG	IISNP99 CG	NaN	HRZ-8-1-8-Oct-1-15	1.330792	0.999894	True	0.000151	0.499796	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2913.0	195.0	CDC30SepPool1	aIISNP236	IISNP236	chr11	65629934.0	G	C	364.0	13.0	0.965517	0.034483	377.0	377.0	0.0	0.000000	chr11_65629413_65630524	522.0	0.034483	0.034483	0.965517	0.034483	G	C	GC	IISNP236 GC	NaN	HRZ-8-1-8-Oct-1-15	0.053192	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2914.0	195.0	CDC30SepPool1	aIISNP182	IISNP182	chr11	94231257.0	C	G	2.0	6194.0	0.000323	0.999677	6196.0	6196.0	0.0	0.000000	chr11_94230690_94231811	568.0	0.000323	0.999677	0.000323	0.000323	G	C	GC	IISNP182 GC	NaN	HRZ-8-1-8-Oct-1-15	0.874214	1.000000	True	0.000163	0.000160	Recipient Homo
HRZ-8-1-8-Oct-1-15	2915.0	195.0	CDC30SepPool1	aIISNP234	IISNP234	chr11	104869708.0	G	C	8003.0	7291.0	0.523277	0.476723	15294.0	15297.0	3.0	0.000196	chr11_104869130_104870257	579.0	0.476723	0.476629	0.523174	0.476629	G	C	GC	IISNP234 GC	NaN	HRZ-8-1-8-Oct-1-15	2.158303	0.999804	True	0.000163	0.476560	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2916.0	195.0	CDC30SepPool1	aIISNP73	IISNP73	chr11	105912984.0	T	C	5682.0	5477.0	0.509185	0.490815	11159.0	11160.0	1.0	0.000090	chr11_105912429_105913529	556.0	0.490815	0.490771	0.509140	0.490771	T	C	TC	IISNP73 TC	NaN	HRZ-8-1-8-Oct-1-15	1.574601	0.999910	True	0.001852	0.488962	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2917.0	195.0	CDC30SepPool1	aIISNP1	IISNP1	chr11	115207176.0	C	G	0.0	2355.0	0.000000	1.000000	2355.0	2355.0	0.0	0.000000	chr11_115206646_115207761	531.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP1 GC	NaN	HRZ-8-1-8-Oct-1-15	0.332275	1.000000	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2918.0	195.0	CDC30SepPool1	aIISNP245	IISNP245	chr11	117163824.0	C	G	10973.0	0.0	1.000000	0.000000	10973.0	10979.0	6.0	0.000546	chr11_117163245_117164370	580.0	0.000000	0.000000	0.999454	0.000000	C	G	CG	IISNP245 CG	NaN	HRZ-8-1-8-Oct-1-15	1.549063	0.999454	True	0.000151	-0.000151	Recipient Homo
HRZ-8-1-8-Oct-1-15	2919.0	195.0	CDC30SepPool1	aIISNP71	IISNP71	chr11	122195989.0	C	T	1450.0	8.0	0.994513	0.005487	1458.0	1458.0	0.0	0.000000	chr11_122195414_122196543	576.0	0.005487	0.005487	0.994513	0.005487	C	T	CT	IISNP71 CT	NaN	HRZ-8-1-8-Oct-1-15	0.205714	1.000000	True	0.001140	0.004347	Recipient Homo
HRZ-8-1-8-Oct-1-15	2920.0	195.0	CDC30SepPool1	aIISNP191	IISNP191	chr11	125763746.0	C	G	4.0	7875.0	0.000508	0.999492	7879.0	7879.0	0.0	0.000000	chr11_125763182_125764289	565.0	0.000508	0.999492	0.000508	0.000508	G	C	GC	IISNP191 GC	NaN	HRZ-8-1-8-Oct-1-15	1.111674	1.000000	True	0.000163	0.000345	Recipient Homo
HRZ-8-1-8-Oct-1-15	2921.0	195.0	CDC30SepPool1	aIISNP145	IISNP145	chr12	5021348.0	G	C	0.0	6044.0	0.000000	1.000000	6044.0	6753.0	709.0	0.104990	chr12_5020815_5021938	534.0	0.000000	0.895010	0.000000	0.000000	C	G	CG	IISNP145 CG	NaN	HRZ-8-1-8-Oct-1-15	0.952803	0.895010	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2922.0	195.0	CDC30SepPool1	aIISNP47	IISNP47	chr12	6909442.0	T	C	6087.0	6895.0	0.468880	0.531120	12982.0	12984.0	2.0	0.000154	chr12_6908891_6910000	552.0	0.468880	0.531038	0.468808	0.468808	C	T	CT	IISNP47 CT	NaN	HRZ-8-1-8-Oct-1-15	1.831955	0.999846	True	0.001140	0.467740	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2923.0	195.0	CDC30SepPool1	aIISNP48	IISNP48	chr12	6945914.0	C	G	3.0	7967.0	0.000376	0.999624	7970.0	7978.0	8.0	0.001003	chr12_6945352_6946456	563.0	0.000376	0.998621	0.000376	0.000376	G	C	GC	IISNP48 GC	NaN	HRZ-8-1-8-Oct-1-15	1.125642	0.998997	True	0.000163	0.000214	Recipient Homo
HRZ-8-1-8-Oct-1-15	2924.0	195.0	CDC30SepPool1	aIISNP258	IISNP258	chr12	14018777.0	G	C	8020.0	0.0	1.000000	0.000000	8020.0	8026.0	6.0	0.000748	chr12_14018199_14019328	579.0	0.000000	0.000000	0.999252	0.000000	G	C	GC	IISNP258 GC	NaN	HRZ-8-1-8-Oct-1-15	1.132414	0.999252	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2925.0	195.0	CDC30SepPool1	aIISNP133	IISNP133	chr12	14656768.0	G	C	1444.0	2.0	0.998617	0.001383	1446.0	1446.0	0.0	0.000000	chr12_14656198_14657327	571.0	0.001383	0.001383	0.998617	0.001383	G	C	GC	IISNP133 GC	NaN	HRZ-8-1-8-Oct-1-15	0.204021	1.000000	True	0.000163	0.001221	Recipient Homo
HRZ-8-1-8-Oct-1-15	2926.0	195.0	CDC30SepPool1	aIISNP142	IISNP142	chr12	31249861.0	C	G	2950.0	3090.0	0.488411	0.511589	6040.0	6046.0	6.0	0.000992	chr12_31249317_31250444	545.0	0.488411	0.511082	0.487926	0.487926	G	C	GC	IISNP142 GC	NaN	HRZ-8-1-8-Oct-1-15	0.853050	0.999008	True	0.000163	0.488248	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2927.0	195.0	CDC30SepPool1	aIISNP132	IISNP132	chr12	49255798.0	G	C	6962.0	6761.0	0.507323	0.492677	13723.0	13723.0	0.0	0.000000	chr12_49255241_49256366	558.0	0.492677	0.492677	0.507323	0.492677	G	C	GC	IISNP132 GC	NaN	HRZ-8-1-8-Oct-1-15	1.936223	1.000000	True	0.000163	0.492514	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2928.0	195.0	CDC30SepPool1	aIISNP156	IISNP156	chr12	56827694.0	C	G	4750.0	3481.0	0.577087	0.422913	8231.0	8231.0	0.0	0.000000	chr12_56827164_56828284	531.0	0.422913	0.422913	0.577087	0.422913	C	G	CG	IISNP156 CG	NaN	HRZ-8-1-8-Oct-1-15	1.161339	1.000000	True	0.000151	0.422762	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2929.0	195.0	CDC30SepPool1	aIISNP276	IISNP276	chr12	88440676.0	G	C	5088.0	5226.0	0.493310	0.506690	10314.0	10314.0	0.0	0.000000	chr12_88440104_88441233	573.0	0.493310	0.506690	0.493310	0.493310	C	G	CG	IISNP276 CG	NaN	HRZ-8-1-8-Oct-1-15	1.455236	1.000000	True	0.000151	0.493159	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2930.0	195.0	CDC30SepPool1	aIISNP26	IISNP26	chr12	130761696.0	A	G	5545.0	5200.0	0.516054	0.483946	10745.0	10745.0	0.0	0.000000	chr12_130761129_130762238	568.0	0.483946	0.483946	0.516054	0.483946	A	G	AG	IISNP26 AG	NaN	HRZ-8-1-8-Oct-1-15	1.516047	1.000000	True	0.001817	0.482129	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2931.0	195.0	CDC30SepPool1	aIISNP125	IISNP125	chr13	25009441.0	C	G	3232.0	1.0	0.999691	0.000309	3233.0	3233.0	0.0	0.000000	chr13_25008849_25009978	593.0	0.000309	0.000309	0.999691	0.000309	C	G	CG	IISNP125 CG	NaN	HRZ-8-1-8-Oct-1-15	0.456154	1.000000	True	0.000151	0.000158	Recipient Homo
HRZ-8-1-8-Oct-1-15	2932.0	195.0	CDC30SepPool1	aIISNP259	IISNP259	chr13	73349359.0	G	C	2237.0	0.0	1.000000	0.000000	2237.0	2238.0	1.0	0.000447	chr13_73348771_73349897	589.0	0.000000	0.000000	0.999553	0.000000	G	C	GC	IISNP259 GC	NaN	HRZ-8-1-8-Oct-1-15	0.315767	0.999553	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2933.0	195.0	CDC30SepPool1	aIISNP85	IISNP85	chr13	84456735.0	T	C	5215.0	5924.0	0.468175	0.531825	11139.0	11139.0	0.0	0.000000	chr13_84456181_84457286	555.0	0.468175	0.531825	0.468175	0.468175	C	T	CT	IISNP85 CT	NaN	HRZ-8-1-8-Oct-1-15	1.571638	1.000000	True	0.001140	0.467035	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2934.0	195.0	CDC30SepPool1	aIISNP98	IISNP98	chr14	31355096.0	C	G	5116.0	3011.0	0.629507	0.370493	8127.0	8127.0	0.0	0.000000	chr14_31354504_31355624	593.0	0.370493	0.370493	0.629507	0.370493	C	G	CG	IISNP98 CG	NaN	HRZ-8-1-8-Oct-1-15	1.146665	1.000000	True	0.000151	0.370342	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2935.0	195.0	CDC30SepPool1	aIISNP255	IISNP255	chr14	50799126.0	G	C	3042.0	1.0	0.999671	0.000329	3043.0	3044.0	1.0	0.000329	chr14_50798535_50799661	592.0	0.000329	0.000329	0.999343	0.000329	G	C	GC	IISNP255 GC	NaN	HRZ-8-1-8-Oct-1-15	0.429488	0.999671	True	0.000163	0.000166	Recipient Homo
HRZ-8-1-8-Oct-1-15	2936.0	195.0	CDC30SepPool1	aIISNP76	IISNP76	chr14	53216723.0	G	C	561.0	6.0	0.989418	0.010582	567.0	567.0	0.0	0.000000	chr14_53216148_53217276	576.0	0.010582	0.010582	0.989418	0.010582	G	C	GC	IISNP76 GC	NaN	HRZ-8-1-8-Oct-1-15	0.080000	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2937.0	195.0	CDC30SepPool1	aIISNP269	IISNP269	chr14	103440473.0	G	C	5884.0	2890.0	0.670618	0.329382	8774.0	8794.0	20.0	0.002274	chr14_103439920_103441032	554.0	0.329382	0.328633	0.669093	0.328633	G	C	GC	IISNP269 GC	NaN	HRZ-8-1-8-Oct-1-15	1.240774	0.997726	True	0.000163	0.329220	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2938.0	195.0	CDC30SepPool1	aIISNP64	IISNP64	chr14	104769149.0	G	A	4350.0	2533.0	0.631992	0.368008	6883.0	6883.0	0.0	0.000000	chr14_104768569_104769678	581.0	0.368008	0.368008	0.631992	0.368008	G	A	GA	IISNP64 GA	NaN	HRZ-8-1-8-Oct-1-15	0.971145	1.000000	True	0.001125	0.366883	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2939.0	195.0	CDC30SepPool1	aIISNP161	IISNP161	chr15	22960868.0	G	C	8941.0	4.0	0.999553	0.000447	8945.0	8949.0	4.0	0.000447	chr15_22960301_22961425	568.0	0.000447	0.000447	0.999106	0.000447	G	C	GC	IISNP161 GC	NaN	HRZ-8-1-8-Oct-1-15	1.262643	0.999553	True	0.000163	0.000285	Recipient Homo
HRZ-8-1-8-Oct-1-15	2940.0	195.0	CDC30SepPool1	aIISNP216	IISNP216	chr15	25925094.0	C	G	1866.0	3637.0	0.339088	0.660912	5503.0	5503.0	0.0	0.000000	chr15_25924513_25925623	582.0	0.339088	0.660912	0.339088	0.339088	G	C	GC	IISNP216 GC	NaN	HRZ-8-1-8-Oct-1-15	0.776436	1.000000	True	0.000163	0.338925	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2941.0	195.0	CDC30SepPool1	aIISNP42	IISNP42	chr15	39313402.0	C	G	12198.0	0.0	1.000000	0.000000	12198.0	12202.0	4.0	0.000328	chr15_39312848_39313954	555.0	0.000000	0.000000	0.999672	0.000000	C	G	CG	IISNP42 CG	NaN	HRZ-8-1-8-Oct-1-15	1.721620	0.999672	True	0.000151	-0.000151	Recipient Homo
HRZ-8-1-8-Oct-1-15	2942.0	195.0	CDC30SepPool1	aIISNP137	IISNP137	chr15	40655873.0	G	C	3955.0	0.0	1.000000	0.000000	3955.0	3959.0	4.0	0.001010	chr15_40655304_40656417	570.0	0.000000	0.000000	0.998990	0.000000	G	C	GC	IISNP137 GC	NaN	HRZ-8-1-8-Oct-1-15	0.558588	0.998990	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2943.0	195.0	CDC30SepPool1	aIISNP113	IISNP113	chr15	78632830.0	C	G	2708.0	3234.0	0.455739	0.544261	5942.0	5942.0	0.0	0.000000	chr15_78632267_78633388	564.0	0.455739	0.544261	0.455739	0.455739	G	C	GC	IISNP113 GC	NaN	HRZ-8-1-8-Oct-1-15	0.838376	1.000000	True	0.000163	0.455576	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2944.0	195.0	CDC30SepPool1	aIISNP270	IISNP270	chr15	94884108.0	G	C	1.0	936.0	0.001067	0.998933	937.0	937.0	0.0	0.000000	chr15_94883526_94884639	583.0	0.001067	0.998933	0.001067	0.001067	C	G	CG	IISNP270 CG	NaN	HRZ-8-1-8-Oct-1-15	0.132204	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2945.0	195.0	CDC30SepPool1	aIISNP15	IISNP15	chr16	5868700.0	A	G	6511.0	5602.0	0.537522	0.462478	12113.0	12117.0	4.0	0.000330	chr16_5868144_5869263	557.0	0.462478	0.462326	0.537344	0.462326	A	G	AG	IISNP15 AG	NaN	HRZ-8-1-8-Oct-1-15	1.709627	0.999670	True	0.001817	0.460662	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2946.0	195.0	CDC30SepPool1	aIISNP75	IISNP75	chr16	7520254.0	C	G	2145.0	1904.0	0.529760	0.470240	4049.0	4050.0	1.0	0.000247	chr16_7519685_7520809	570.0	0.470240	0.470123	0.529630	0.470123	C	G	CG	IISNP75 CG	NaN	HRZ-8-1-8-Oct-1-15	0.571428	0.999753	True	0.000151	0.470088	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2947.0	195.0	CDC30SepPool1	aIISNP273	IISNP273	chr16	8953081.0	C	G	0.0	13.0	0.000000	1.000000	13.0	13.0	0.0	0.000000	chr16_8952508_8953628	574.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP273 GC	NaN	HRZ-8-1-8-Oct-1-15	0.001834	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2948.0	195.0	CDC30SepPool1	aIISNP194	IISNP194	chr16	11773662.0	C	G	1434.0	1462.0	0.495166	0.504834	2896.0	2896.0	0.0	0.000000	chr16_11773071_11774198	592.0	0.495166	0.504834	0.495166	0.495166	G	C	GC	IISNP194 GC	NaN	HRZ-8-1-8-Oct-1-15	0.408606	1.000000	True	0.000163	0.495003	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2949.0	195.0	CDC30SepPool1	aIISNP271	IISNP271	chr16	16278869.0	G	C	1973.0	1816.0	0.520718	0.479282	3789.0	3789.0	0.0	0.000000	chr16_16278312_16279424	558.0	0.479282	0.479282	0.520718	0.479282	G	C	GC	IISNP271 GC	NaN	HRZ-8-1-8-Oct-1-15	0.534602	1.000000	True	0.000163	0.479120	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2950.0	195.0	CDC30SepPool1	aIISNP12	IISNP12	chr16	78017051.0	C	T	6412.0	6.0	0.999065	0.000935	6418.0	6418.0	0.0	0.000000	chr16_78016473_78017602	579.0	0.000935	0.000935	0.999065	0.000935	C	T	CT	IISNP12 CT	NaN	HRZ-8-1-8-Oct-1-15	0.905536	1.000000	True	0.001140	-0.000205	Recipient Homo
HRZ-8-1-8-Oct-1-15	2951.0	195.0	CDC30SepPool1	aIISNP224	IISNP224	chr16	84522897.0	G	C	2931.0	3828.0	0.433644	0.566356	6759.0	6759.0	0.0	0.000000	chr16_84522346_84523470	552.0	0.433644	0.566356	0.433644	0.433644	C	G	CG	IISNP224 CG	NaN	HRZ-8-1-8-Oct-1-15	0.953649	1.000000	True	0.000151	0.433493	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2952.0	195.0	CDC30SepPool1	aIISNP168	IISNP168	chr16	88767769.0	G	C	3507.0	4.0	0.998861	0.001139	3511.0	3515.0	4.0	0.001138	chr16_88767192_88768321	578.0	0.001139	0.001138	0.997724	0.001138	G	C	GC	IISNP168 GC	NaN	HRZ-8-1-8-Oct-1-15	0.495943	0.998862	True	0.000163	0.000977	Recipient Homo
HRZ-8-1-8-Oct-1-15	2953.0	195.0	CDC30SepPool1	aIISNP90	IISNP90	chr17	2919393.0	A	G	3595.0	6693.0	0.349436	0.650564	10288.0	10288.0	0.0	0.000000	chr17_2918812_2919921	582.0	0.349436	0.650564	0.349436	0.349436	G	A	GA	IISNP90 GA	NaN	HRZ-8-1-8-Oct-1-15	1.451567	1.000000	True	0.001125	0.348311	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2954.0	195.0	CDC30SepPool1	aIISNP67	IISNP67	chr17	6811529.0	G	A	149.0	25.0	0.856322	0.143678	174.0	174.0	0.0	0.000000	chr17_6810940_6812066	590.0	0.143678	0.143678	0.856322	0.143678	G	A	GA	IISNP67 GA	NaN	HRZ-8-1-8-Oct-1-15	0.024550	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2955.0	195.0	CDC30SepPool1	aIISNP210	IISNP210	chr17	7460517.0	G	C	532.0	498.0	0.516505	0.483495	1030.0	1030.0	0.0	0.000000	chr17_7459983_7461095	535.0	0.483495	0.483495	0.516505	0.483495	G	C	GC	IISNP210 GC	NaN	HRZ-8-1-8-Oct-1-15	0.145326	1.000000	True	0.000163	0.483333	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2956.0	195.0	CDC30SepPool1	aIISNP170	IISNP170	chr17	15217437.0	C	G	10250.0	14.0	0.998636	0.001364	10264.0	10274.0	10.0	0.000973	chr17_15216858_15217965	580.0	0.001364	0.001363	0.997664	0.001363	C	G	CG	IISNP170 CG	NaN	HRZ-8-1-8-Oct-1-15	1.449592	0.999027	True	0.000151	0.001213	Recipient Homo
HRZ-8-1-8-Oct-1-15	2957.0	195.0	CDC30SepPool1	aIISNP209	IISNP209	chr17	17696531.0	G	C	999.0	1307.0	0.433218	0.566782	2306.0	2308.0	2.0	0.000867	chr17_17695991_17697117	541.0	0.433218	0.566291	0.432842	0.432842	C	G	CG	IISNP209 CG	NaN	HRZ-8-1-8-Oct-1-15	0.325643	0.999133	True	0.000151	0.433066	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2958.0	195.0	CDC30SepPool1	aIISNP101	IISNP101	chr17	33998802.0	G	C	15990.0	1.0	0.999937	0.000063	15991.0	16008.0	17.0	0.001062	chr17_33998221_33999330	582.0	0.000063	0.000062	0.998876	0.000062	G	C	GC	IISNP101 GC	NaN	HRZ-8-1-8-Oct-1-15	2.258621	0.998938	True	0.000163	-0.000100	Recipient Homo
HRZ-8-1-8-Oct-1-15	2959.0	195.0	CDC30SepPool1	aIISNP192	IISNP192	chr17	35902225.0	C	G	3267.0	9.0	0.997253	0.002747	3276.0	3279.0	3.0	0.000915	chr17_35901690_35902813	536.0	0.002747	0.002745	0.996340	0.002745	C	G	CG	IISNP192 CG	NaN	HRZ-8-1-8-Oct-1-15	0.462645	0.999085	True	0.000151	0.002596	Recipient Homo
HRZ-8-1-8-Oct-1-15	2960.0	195.0	CDC30SepPool1	aIISNP46	IISNP46	chr17	41286822.0	T	G	5630.0	447.0	0.926444	0.073556	6077.0	6082.0	5.0	0.000822	chr17_41286243_41287360	580.0	0.073556	0.073496	0.925682	0.073496	T	G	TG	IISNP46 TG	NaN	HRZ-8-1-8-Oct-1-15	0.858129	0.999178	True	0.000146	0.073410	Recipient Homo
HRZ-8-1-8-Oct-1-15	2961.0	195.0	CDC30SepPool1	aIISNP81	IISNP81	chr17	41341984.0	A	G	7427.0	4.0	0.999462	0.000538	7431.0	7432.0	1.0	0.000135	chr17_41341424_41342523	561.0	0.000538	0.000538	0.999327	0.000538	A	G	AG	IISNP81 AG	NaN	HRZ-8-1-8-Oct-1-15	1.048605	0.999865	True	0.001817	-0.001278	Recipient Homo
HRZ-8-1-8-Oct-1-15	2962.0	195.0	CDC30SepPool1	aIISNP21	IISNP21	chr17	41691526.0	G	A	6.0	9664.0	0.000620	0.999380	9670.0	9670.0	0.0	0.000000	chr17_41690968_41692073	559.0	0.000620	0.999380	0.000620	0.000620	A	G	AG	IISNP21 AG	NaN	HRZ-8-1-8-Oct-1-15	1.364372	1.000000	True	0.001817	-0.001196	Recipient Homo
HRZ-8-1-8-Oct-1-15	2963.0	195.0	CDC30SepPool1	aIISNP278	IISNP278	chr17	42475983.0	G	C	5066.0	5436.0	0.482384	0.517616	10502.0	10504.0	2.0	0.000190	chr17_42475406_42476535	578.0	0.482384	0.517517	0.482292	0.482292	C	G	CG	IISNP278 CG	NaN	HRZ-8-1-8-Oct-1-15	1.482043	0.999810	True	0.000151	0.482233	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2964.0	195.0	CDC30SepPool1	aIISNP23	IISNP23	chr17	46510697.0	A	G	6977.0	7500.0	0.481937	0.518063	14477.0	14482.0	5.0	0.000345	chr17_46510138_46511265	560.0	0.481937	0.517884	0.481770	0.481770	G	A	GA	IISNP23 GA	NaN	HRZ-8-1-8-Oct-1-15	2.043312	0.999655	True	0.001125	0.480812	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2965.0	195.0	CDC30SepPool1	aIISNP272	IISNP272	chr17	48625928.0	C	G	537.0	732.0	0.423168	0.576832	1269.0	1269.0	0.0	0.000000	chr17_48625341_48626470	588.0	0.423168	0.576832	0.423168	0.423168	G	C	GC	IISNP272 GC	NaN	HRZ-8-1-8-Oct-1-15	0.179047	1.000000	True	0.000163	0.423005	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2966.0	195.0	CDC30SepPool1	aIISNP262	IISNP262	chr17	71232881.0	G	C	2.0	10703.0	0.000187	0.999813	10705.0	10707.0	2.0	0.000187	chr17_71232306_71233435	576.0	0.000187	0.999626	0.000187	0.000187	C	G	CG	IISNP262 CG	NaN	HRZ-8-1-8-Oct-1-15	1.510685	0.999813	True	0.000151	0.000035	Recipient Homo
HRZ-8-1-8-Oct-1-15	2967.0	195.0	CDC30SepPool1	aIISNP160	IISNP160	chr17	76449505.0	G	C	5524.0	4883.0	0.530797	0.469203	10407.0	10408.0	1.0	0.000096	chr17_76448943_76450062	563.0	0.469203	0.469158	0.530746	0.469158	G	C	GC	IISNP160 GC	NaN	HRZ-8-1-8-Oct-1-15	1.468499	0.999904	True	0.000163	0.469041	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2968.0	195.0	CDC30SepPool1	aIISNP230	IISNP230	chr17	78319380.0	G	C	5153.0	5956.0	0.463858	0.536142	11109.0	11113.0	4.0	0.000360	chr17_78318816_78319925	565.0	0.463858	0.535949	0.463691	0.463691	C	G	CG	IISNP230 CG	NaN	HRZ-8-1-8-Oct-1-15	1.567969	0.999640	True	0.000151	0.463707	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2969.0	195.0	CDC30SepPool1	aIISNP82	IISNP82	chr17	80461935.0	C	T	1301.0	1505.0	0.463649	0.536351	2806.0	2807.0	1.0	0.000356	chr17_80461344_80462465	592.0	0.463649	0.536160	0.463484	0.463484	T	C	TC	IISNP82 TC	NaN	HRZ-8-1-8-Oct-1-15	0.396049	0.999644	True	0.001852	0.461797	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2970.0	195.0	CDC30SepPool1	aIISNP51	IISNP51	chr17	80526139.0	A	G	1362.0	1274.0	0.516692	0.483308	2636.0	2636.0	0.0	0.000000	chr17_80525564_80526669	576.0	0.483308	0.483308	0.516692	0.483308	A	G	AG	IISNP51 AG	NaN	HRZ-8-1-8-Oct-1-15	0.371922	1.000000	True	0.001817	0.481491	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2971.0	195.0	CDC30SepPool1	aIISNP66	IISNP66	chr17	80531643.0	C	G	1798.0	1661.0	0.519803	0.480197	3459.0	3459.0	0.0	0.000000	chr17_80531082_80532207	562.0	0.480197	0.480197	0.519803	0.480197	C	G	CG	IISNP66 CG	NaN	HRZ-8-1-8-Oct-1-15	0.488042	1.000000	True	0.000151	0.480045	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2972.0	195.0	CDC30SepPool1	aIISNP74	IISNP74	chr17	80715702.0	G	C	8757.0	0.0	1.000000	0.000000	8757.0	8763.0	6.0	0.000685	chr17_80715140_80716246	563.0	0.000000	0.000000	0.999315	0.000000	G	C	GC	IISNP74 GC	NaN	HRZ-8-1-8-Oct-1-15	1.236400	0.999315	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2973.0	195.0	CDC30SepPool1	aIISNP52	IISNP52	chr17	80765788.0	T	C	9556.0	7.0	0.999268	0.000732	9563.0	9563.0	0.0	0.000000	chr17_80765219_80766321	570.0	0.000732	0.000732	0.999268	0.000732	T	C	TC	IISNP52 TC	NaN	HRZ-8-1-8-Oct-1-15	1.349275	1.000000	True	0.001852	-0.001120	Recipient Homo
HRZ-8-1-8-Oct-1-15	2974.0	195.0	CDC30SepPool1	aIISNP92	IISNP92	chr18	9749879.0	G	A	6318.0	6627.0	0.488065	0.511935	12945.0	12948.0	3.0	0.000232	chr18_9749309_9750416	571.0	0.488065	0.511816	0.487952	0.487952	A	G	AG	IISNP92 AG	NaN	HRZ-8-1-8-Oct-1-15	1.826875	0.999768	True	0.001817	0.486248	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2975.0	195.0	CDC30SepPool1	aIISNP87	IISNP87	chr18	29311034.0	G	A	8.0	8146.0	0.000981	0.999019	8154.0	8157.0	3.0	0.000368	chr18_29310484_29311587	551.0	0.000981	0.998651	0.000981	0.000981	A	G	AG	IISNP87 AG	NaN	HRZ-8-1-8-Oct-1-15	1.150898	0.999632	True	0.001817	-0.000836	Recipient Homo
HRZ-8-1-8-Oct-1-15	2976.0	195.0	CDC30SepPool1	aIISNP186	IISNP186	chr18	44561100.0	C	G	6829.0	49.0	0.992876	0.007124	6878.0	6882.0	4.0	0.000581	chr18_44560549_44561667	552.0	0.007124	0.007120	0.992299	0.007120	C	G	CG	IISNP186 CG	NaN	HRZ-8-1-8-Oct-1-15	0.971004	0.999419	True	0.000151	0.006973	Recipient Homo
HRZ-8-1-8-Oct-1-15	2977.0	195.0	CDC30SepPool1	aIISNP69	IISNP69	chr18	47371014.0	C	G	1.0	7615.0	0.000131	0.999869	7616.0	7620.0	4.0	0.000525	chr18_47370442_47371541	573.0	0.000131	0.999344	0.000131	0.000131	G	C	GC	IISNP69 GC	NaN	HRZ-8-1-8-Oct-1-15	1.075131	0.999475	True	0.000163	-0.000031	Recipient Homo
HRZ-8-1-8-Oct-1-15	2978.0	195.0	CDC30SepPool1	aIISNP232	IISNP232	chr18	48333203.0	C	G	6686.0	1.0	0.999850	0.000150	6687.0	6787.0	100.0	0.014734	chr18_48332670_48333785	534.0	0.000150	0.000147	0.985119	0.000147	C	G	CG	IISNP232 CG	NaN	HRZ-8-1-8-Oct-1-15	0.957600	0.985266	True	0.000151	-0.000002	Recipient Homo
HRZ-8-1-8-Oct-1-15	2979.0	195.0	CDC30SepPool1	aIISNP41	IISNP41	chr18	55225777.0	T	C	12564.0	51.0	0.995957	0.004043	12615.0	12615.0	0.0	0.000000	chr18_55225209_55226308	569.0	0.004043	0.004043	0.995957	0.004043	T	C	TC	IISNP41 TC	NaN	HRZ-8-1-8-Oct-1-15	1.779891	1.000000	True	0.001852	0.002190	Recipient Homo
HRZ-8-1-8-Oct-1-15	2980.0	195.0	CDC30SepPool1	aIISNP211	IISNP211	chr18	56204945.0	C	G	0.0	10304.0	0.000000	1.000000	10304.0	10304.0	0.0	0.000000	chr18_56204367_56205474	579.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP211 GC	NaN	HRZ-8-1-8-Oct-1-15	1.453825	1.000000	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2981.0	195.0	CDC30SepPool1	aIISNP130	IISNP130	chr19	619021.0	G	C	218.0	256.0	0.459916	0.540084	474.0	474.0	0.0	0.000000	chr19_618466_619585	556.0	0.459916	0.540084	0.459916	0.459916	C	G	CG	IISNP130 CG	NaN	HRZ-8-1-8-Oct-1-15	0.066878	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2982.0	195.0	CDC30SepPool1	aIISNP226	IISNP226	chr19	7986638.0	C	G	226.0	0.0	1.000000	0.000000	226.0	226.0	0.0	0.000000	chr19_7986080_7987202	559.0	0.000000	0.000000	1.000000	0.000000	C	G	CG	IISNP226 CG	NaN	HRZ-8-1-8-Oct-1-15	0.031887	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2983.0	195.0	CDC30SepPool1	aIISNP159	IISNP159	chr19	10084292.0	C	G	15087.0	6.0	0.999602	0.000398	15093.0	15107.0	14.0	0.000927	chr19_10083723_10084832	570.0	0.000398	0.000397	0.998676	0.000397	C	G	CG	IISNP159 CG	NaN	HRZ-8-1-8-Oct-1-15	2.131496	0.999073	True	0.000151	0.000246	Recipient Homo
HRZ-8-1-8-Oct-1-15	2984.0	195.0	CDC30SepPool1	aIISNP100	IISNP100	chr19	10600442.0	G	C	5447.0	0.0	1.000000	0.000000	5447.0	5447.0	0.0	0.000000	chr19_10599851_10600965	592.0	0.000000	0.000000	1.000000	0.000000	G	C	GC	IISNP100 GC	NaN	HRZ-8-1-8-Oct-1-15	0.768535	1.000000	True	0.000163	-0.000163	Recipient Homo
HRZ-8-1-8-Oct-1-15	2985.0	195.0	CDC30SepPool1	aIISNP217	IISNP217	chr19	10670184.0	C	G	271.0	0.0	1.000000	0.000000	271.0	271.0	0.0	0.000000	chr19_10669614_10670743	571.0	0.000000	0.000000	1.000000	0.000000	C	G	CG	IISNP217 CG	NaN	HRZ-8-1-8-Oct-1-15	0.038236	1.000000	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2986.0	195.0	CDC30SepPool1	aIISNP274	IISNP274	chr19	18377647.0	G	C	2.0	2904.0	0.000688	0.999312	2906.0	2913.0	7.0	0.002403	chr19_18377056_18378185	592.0	0.000688	0.996910	0.000687	0.000687	C	G	CG	IISNP274 CG	NaN	HRZ-8-1-8-Oct-1-15	0.411005	0.997597	True	0.000151	0.000537	Recipient Homo
HRZ-8-1-8-Oct-1-15	2987.0	195.0	CDC30SepPool1	aIISNP171	IISNP171	chr19	36278470.0	C	G	143.0	407.0	0.260000	0.740000	550.0	552.0	2.0	0.003623	chr19_36277889_36279010	582.0	0.260000	0.737319	0.259058	0.259058	G	C	GC	IISNP171 GC	NaN	HRZ-8-1-8-Oct-1-15	0.077883	0.996377	False	NaN	NaN	NaN
HRZ-8-1-8-Oct-1-15	2988.0	195.0	CDC30SepPool1	aIISNP13	IISNP13	chr19	39559807.0	A	C	6010.0	5077.0	0.542076	0.457924	11087.0	11103.0	16.0	0.001441	chr19_39559236_39560337	572.0	0.457924	0.457264	0.541295	0.457264	A	C	AC	IISNP13 AC	NaN	HRZ-8-1-8-Oct-1-15	1.566558	0.998559	True	0.000148	0.457776	Recipient Hetero
HRZ-8-1-8-Oct-1-15	2989.0	195.0	CDC30SepPool1	aIISNP95	IISNP95	chr19	41939297.0	C	G	5.0	5074.0	0.000984	0.999016	5079.0	5082.0	3.0	0.000590	chr19_41938759_41939869	539.0	0.000984	0.998426	0.000984	0.000984	G	C	GC	IISNP95 GC	NaN	HRZ-8-1-8-Oct-1-15	0.717036	0.999410	True	0.000163	0.000822	Recipient Homo
HRZ-8-1-8-Oct-1-15	2990.0	195.0	CDC30SepPool1	aIISNP117	IISNP117	chr19	44303066.0	C	G	902.0	1853.0	0.327405	0.672595	2755.0	2756.0	1.0	0.000363	chr19_44302506_44303626	561.0	0.327405	0.672351	0.327286	0.327286	G	C	GC	IISNP117 GC	NaN	HRZ-8-1-8-Oct-1-15	0.388853	0.999637	True	0.000163	0.327242	Recipient Hetero
Streck-4-Oct-1-15	4127.0	195.0	CDC30SepPool1	aIISNP202	IISNP202	chr6	76660551.0	G	C	4394.0	4716.0	0.482327	0.517673	9110.0	9110.0	0.0	0.000000	chr6_76659989_76661118	563.0	0.482327	0.517673	0.482327	0.482327	C	G	CG	IISNP202 CG	NaN	Streck-4-Oct-1-15	1.121965	1.000000	True	0.000147	0.482180	Recipient Hetero
Streck-4-Oct-1-15	4128.0	195.0	CDC30SepPool1	aIISNP36	IISNP36	chr6	120560694.0	T	A	7955.0	15.0	0.998118	0.001882	7970.0	7972.0	2.0	0.000251	chr6_120560128_120561231	567.0	0.001882	0.001882	0.997868	0.001882	T	A	TA	IISNP36 TA	NaN	Streck-4-Oct-1-15	0.981812	0.999749	True	0.000300	0.001583	Recipient Homo
Streck-4-Oct-1-15	4129.0	195.0	CDC30SepPool1	aIISNP34	IISNP34	chr6	123894978.0	C	A	1768.0	5.0	0.997180	0.002820	1773.0	1773.0	0.0	0.000000	chr6_123894407_123895512	572.0	0.002820	0.002820	0.997180	0.002820	C	A	CA	IISNP34 CA	NaN	Streck-4-Oct-1-15	0.218358	1.000000	True	0.000338	0.002482	Recipient Homo
Streck-4-Oct-1-15	4130.0	195.0	CDC30SepPool1	aIISNP164	IISNP164	chr6	126278230.0	G	C	3369.0	3014.0	0.527808	0.472192	6383.0	6384.0	1.0	0.000157	chr6_126277677_126278784	554.0	0.472192	0.472118	0.527726	0.472118	G	C	GC	IISNP164 GC	NaN	Streck-4-Oct-1-15	0.786237	0.999843	True	0.000167	0.472025	Recipient Hetero
Streck-4-Oct-1-15	4131.0	195.0	CDC30SepPool1	aIISNP54	IISNP54	chr6	127463376.0	C	A	1087.0	432.0	0.715602	0.284398	1519.0	1519.0	0.0	0.000000	chr6_127462805_127463913	572.0	0.284398	0.284398	0.715602	0.284398	C	A	CA	IISNP54 CA	NaN	Streck-4-Oct-1-15	0.187076	1.000000	True	0.000338	0.284060	Recipient Hetero
Streck-4-Oct-1-15	4132.0	195.0	CDC30SepPool1	aIISNP247	IISNP247	chr6	138413333.0	G	C	10523.0	13086.0	0.445720	0.554280	23609.0	23646.0	37.0	0.001565	chr6_138412785_138413907	549.0	0.445720	0.553413	0.445022	0.445022	C	G	CG	IISNP247 CG	NaN	Streck-4-Oct-1-15	2.912182	0.998435	True	0.000147	0.445573	Recipient Hetero
Streck-4-Oct-1-15	4133.0	195.0	CDC30SepPool1	aIISNP50	IISNP50	chr6	148761456.0	G	C	5321.0	4351.0	0.550145	0.449855	9672.0	9684.0	12.0	0.001239	chr6_148760890_148761999	567.0	0.449855	0.449298	0.549463	0.449298	G	C	GC	IISNP50 GC	NaN	Streck-4-Oct-1-15	1.192657	0.998761	True	0.000167	0.449688	Recipient Hetero
Streck-4-Oct-1-15	4134.0	195.0	CDC30SepPool1	aIISNP172	IISNP172	chr6	150209717.0	C	G	1400.0	1277.0	0.522973	0.477027	2677.0	2677.0	0.0	0.000000	chr6_150209159_150210278	559.0	0.477027	0.477027	0.522973	0.477027	C	G	CG	IISNP172 CG	NaN	Streck-4-Oct-1-15	0.329693	1.000000	True	0.000147	0.476880	Recipient Hetero
Streck-4-Oct-1-15	4135.0	195.0	CDC30SepPool1	aIISNP45	IISNP45	chr6	152697706.0	C	T	9539.0	15.0	0.998430	0.001570	9554.0	9558.0	4.0	0.000418	chr6_152697130_152698240	577.0	0.001570	0.001569	0.998012	0.001569	C	T	CT	IISNP45 CT	NaN	Streck-4-Oct-1-15	1.177139	0.999582	True	0.001080	0.000490	Recipient Homo
Streck-4-Oct-1-15	4136.0	195.0	CDC30SepPool1	aIISNP122	IISNP122	chr6	170862300.0	G	C	7379.0	4601.0	0.615943	0.384057	11980.0	11986.0	6.0	0.000501	chr6_170861722_170862832	579.0	0.384057	0.383865	0.615635	0.383865	G	C	GC	IISNP122 GC	NaN	Streck-4-Oct-1-15	1.476166	0.999499	True	0.000167	0.383890	Recipient Hetero
Streck-4-Oct-1-15	4137.0	195.0	CDC30SepPool1	aIISNP267	IISNP267	chr7	4026944.0	C	G	4255.0	4762.0	0.471886	0.528114	9017.0	9030.0	13.0	0.001440	chr7_4026399_4027521	546.0	0.471886	0.527353	0.471207	0.471207	G	C	GC	IISNP267 GC	NaN	Streck-4-Oct-1-15	1.112112	0.998560	True	0.000167	0.471719	Recipient Hetero
...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...	...
AVBlank2-Nov-10-15	725.0	288.0	CYC10Nov2015Pool3	aIISNP176	IISNP176	chr5	75932965.0	G	C	9057.0	7745.0	0.539043	0.460957	16802.0	16806.0	4.0	0.000238	chr5_75932415_75933522	551.0	0.460957	0.460847	0.538915	0.460847	G	C	GC	IISNP176 GC	NaN	AVBlank2-Nov-10-15	2.069358	0.999762	True	0.000182	0.460775	Recipient Hetero
AVBlank2-Nov-10-15	726.0	288.0	CYC10Nov2015Pool3	aIISNP179	IISNP179	chr5	78340257.0	C	G	9736.0	18.0	0.998155	0.001845	9754.0	9765.0	11.0	0.001126	chr5_78339702_78340831	556.0	0.001845	0.001843	0.997030	0.001843	C	G	CG	IISNP179 CG	NaN	AVBlank2-Nov-10-15	1.202385	0.998874	True	0.000187	0.001658	Recipient Homo
AVBlank2-Nov-10-15	727.0	288.0	CYC10Nov2015Pool3	aIISNP9	IISNP9	chr5	136633338.0	G	A	5317.0	5170.0	0.507009	0.492991	10487.0	10489.0	2.0	0.000191	chr5_136632784_136633892	555.0	0.492991	0.492897	0.506912	0.492897	G	A	GA	IISNP9 GA	NaN	AVBlank2-Nov-10-15	1.291532	0.999809	True	0.000987	0.492004	Recipient Hetero
AVBlank2-Nov-10-15	728.0	288.0	CYC10Nov2015Pool3	aIISNP177	IISNP177	chr5	140531746.0	C	G	762.0	408.0	0.651282	0.348718	1170.0	1171.0	1.0	0.000854	chr5_140531170_140532269	577.0	0.348718	0.348420	0.650726	0.348420	C	G	CG	IISNP177 CG	NaN	AVBlank2-Nov-10-15	0.144188	0.999146	True	0.000187	0.348531	Recipient Hetero
AVBlank2-Nov-10-15	729.0	288.0	CYC10Nov2015Pool3	aIISNP106	IISNP106	chr5	145442203.0	G	C	9.0	9476.0	0.000949	0.999051	9485.0	9493.0	8.0	0.000843	chr5_145441622_145442735	582.0	0.000949	0.998209	0.000948	0.000948	C	G	CG	IISNP106 CG	NaN	AVBlank2-Nov-10-15	1.168893	0.999157	True	0.000187	0.000762	Recipient Homo
AVBlank2-Nov-10-15	730.0	288.0	CYC10Nov2015Pool3	aIISNP80	IISNP80	chr5	159487953.0	G	A	2.0	863.0	0.002312	0.997688	865.0	865.0	0.0	0.000000	chr5_159487382_159488507	572.0	0.002312	0.997688	0.002312	0.002312	A	G	AG	IISNP80 AG	NaN	AVBlank2-Nov-10-15	0.106509	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	731.0	288.0	CYC10Nov2015Pool3	aIISNP123	IISNP123	chr5	161119125.0	C	G	2007.0	2129.0	0.485251	0.514749	4136.0	4136.0	0.0	0.000000	chr5_161118544_161119671	582.0	0.485251	0.514749	0.485251	0.485251	G	C	GC	IISNP123 GC	NaN	AVBlank2-Nov-10-15	0.509274	1.000000	True	0.000182	0.485069	Recipient Hetero
AVBlank2-Nov-10-15	732.0	288.0	CYC10Nov2015Pool3	aIISNP58	IISNP58	chr5	169735920.0	A	C	6758.0	6390.0	0.513995	0.486005	13148.0	13150.0	2.0	0.000152	chr5_169735367_169736476	554.0	0.486005	0.485932	0.513916	0.485932	A	C	AC	IISNP58 AC	NaN	AVBlank2-Nov-10-15	1.619187	0.999848	True	0.000181	0.485824	Recipient Hetero
AVBlank2-Nov-10-15	733.0	288.0	CYC10Nov2015Pool3	aIISNP115	IISNP115	chr5	176863519.0	G	C	2.0	5661.0	0.000353	0.999647	5663.0	5668.0	5.0	0.000882	chr5_176862952_176864062	568.0	0.000353	0.998765	0.000353	0.000353	C	G	CG	IISNP115 CG	NaN	AVBlank2-Nov-10-15	0.697913	0.999118	True	0.000187	0.000166	Recipient Homo
AVBlank2-Nov-10-15	525.0	288.0	CYC10Nov2015Pool3	aIISNP79	IISNP79	chr1	14155402.0	G	A	17.0	10112.0	0.001678	0.998322	10129.0	10129.0	0.0	0.000000	chr1_14154833_14155962	570.0	0.001678	0.998322	0.001678	0.001678	A	G	AG	IISNP79 AG	NaN	AVBlank2-Nov-10-15	1.247205	1.000000	True	0.001456	0.000222	Recipient Homo
AVBlank2-Nov-10-15	526.0	288.0	CYC10Nov2015Pool3	aIISNP275	IISNP275	chr1	17660499.0	G	C	10608.0	11371.0	0.482643	0.517357	21979.0	22014.0	35.0	0.001590	chr1_17659939_17661046	561.0	0.482643	0.516535	0.481875	0.481875	C	G	CG	IISNP275 CG	NaN	AVBlank2-Nov-10-15	2.710629	0.998410	True	0.000187	0.482456	Recipient Hetero
AVBlank2-Nov-10-15	527.0	288.0	CYC10Nov2015Pool3	aIISNP96	IISNP96	chr1	19447843.0	C	G	8804.0	8854.0	0.498584	0.501416	17658.0	17663.0	5.0	0.000283	chr1_19447280_19448406	564.0	0.498584	0.501274	0.498443	0.498443	G	C	GC	IISNP96 GC	NaN	AVBlank2-Nov-10-15	2.174882	0.999717	True	0.000182	0.498402	Recipient Hetero
AVBlank2-Nov-10-15	528.0	288.0	CYC10Nov2015Pool3	aIISNP152	IISNP152	chr1	22216604.0	C	G	2.0	2353.0	0.000849	0.999151	2355.0	2355.0	0.0	0.000000	chr1_22216012_22217133	593.0	0.000849	0.999151	0.000849	0.000849	G	C	GC	IISNP152 GC	NaN	AVBlank2-Nov-10-15	0.289976	1.000000	True	0.000182	0.000667	Recipient Homo
AVBlank2-Nov-10-15	529.0	288.0	CYC10Nov2015Pool3	aIISNP265	IISNP265	chr1	47799639.0	G	C	1062.0	1049.0	0.503079	0.496921	2111.0	2113.0	2.0	0.000947	chr1_47799106_47800221	534.0	0.496921	0.496451	0.502603	0.496451	G	C	GC	IISNP265 GC	NaN	AVBlank2-Nov-10-15	0.260178	0.999053	True	0.000182	0.496739	Recipient Hetero
AVBlank2-Nov-10-15	530.0	288.0	CYC10Nov2015Pool3	aIISNP180	IISNP180	chr1	62516683.0	G	C	18667.0	6.0	0.999679	0.000321	18673.0	18673.0	0.0	0.000000	chr1_62516111_62517226	573.0	0.000321	0.000321	0.999679	0.000321	G	C	GC	IISNP180 GC	NaN	AVBlank2-Nov-10-15	2.299245	1.000000	True	0.000182	0.000139	Recipient Homo
AVBlank2-Nov-10-15	531.0	288.0	CYC10Nov2015Pool3	aIISNP111	IISNP111	chr1	75097426.0	G	C	11844.0	44.0	0.996299	0.003701	11888.0	11924.0	36.0	0.003019	chr1_75096893_75098000	534.0	0.003701	0.003690	0.993291	0.003690	G	C	GC	IISNP111 GC	NaN	AVBlank2-Nov-10-15	1.468227	0.996981	True	0.000182	0.003519	Recipient Homo
AVBlank2-Nov-10-15	532.0	288.0	CYC10Nov2015Pool3	aIISNP162	IISNP162	chr1	87101375.0	C	G	11.0	23125.0	0.000475	0.999525	23136.0	23139.0	3.0	0.000130	chr1_87100813_87101939	563.0	0.000475	0.999395	0.000475	0.000475	G	C	GC	IISNP162 GC	NaN	AVBlank2-Nov-10-15	2.849153	0.999870	True	0.000182	0.000293	Recipient Homo
AVBlank2-Nov-10-15	533.0	288.0	CYC10Nov2015Pool3	aIISNP68	IISNP68	chr1	105717631.0	A	G	1616.0	3366.0	0.324368	0.675632	4982.0	4984.0	2.0	0.000401	chr1_105717077_105718184	555.0	0.324368	0.675361	0.324238	0.324238	G	A	GA	IISNP68 GA	NaN	AVBlank2-Nov-10-15	0.613690	0.999599	True	0.000987	0.323380	Recipient Hetero
AVBlank2-Nov-10-15	534.0	288.0	CYC10Nov2015Pool3	aIISNP268	IISNP268	chr1	111957097.0	C	G	10663.0	9200.0	0.536827	0.463173	19863.0	19870.0	7.0	0.000352	chr1_111956532_111957661	566.0	0.463173	0.463010	0.536638	0.463010	C	G	CG	IISNP268 CG	NaN	AVBlank2-Nov-10-15	2.446634	0.999648	True	0.000187	0.462986	Recipient Hetero
AVBlank2-Nov-10-15	535.0	288.0	CYC10Nov2015Pool3	aIISNP222	IISNP222	chr1	150526044.0	G	C	6372.0	5156.0	0.552741	0.447259	11528.0	11537.0	9.0	0.000780	chr1_150525491_150526617	554.0	0.447259	0.446910	0.552310	0.446910	G	C	GC	IISNP222 GC	NaN	AVBlank2-Nov-10-15	1.420575	0.999220	True	0.000182	0.447077	Recipient Hetero
AVBlank2-Nov-10-15	536.0	288.0	CYC10Nov2015Pool3	aIISNP227	IISNP227	chr1	152732436.0	G	C	4069.0	4023.0	0.502842	0.497158	8092.0	8097.0	5.0	0.000618	chr1_152731903_152733020	534.0	0.497158	0.496851	0.502532	0.496851	G	C	GC	IISNP227 GC	NaN	AVBlank2-Nov-10-15	0.997000	0.999382	True	0.000182	0.496976	Recipient Hetero
AVBlank2-Nov-10-15	537.0	288.0	CYC10Nov2015Pool3	aIISNP102	IISNP102	chr1	154744807.0	C	G	5654.0	5835.0	0.492123	0.507877	11489.0	11491.0	2.0	0.000174	chr1_154744236_154745348	572.0	0.492123	0.507789	0.492037	0.492037	G	C	GC	IISNP102 GC	NaN	AVBlank2-Nov-10-15	1.414911	0.999826	True	0.000182	0.491941	Recipient Hetero
AVBlank2-Nov-10-15	538.0	288.0	CYC10Nov2015Pool3	aIISNP3	IISNP3	chr1	160786670.0	A	G	15649.0	8.0	0.999489	0.000511	15657.0	15659.0	2.0	0.000128	chr1_160786113_160787219	558.0	0.000511	0.000511	0.999361	0.000511	A	G	AG	IISNP3 AG	NaN	AVBlank2-Nov-10-15	1.928125	0.999872	True	0.001456	-0.000945	Recipient Homo
AVBlank2-Nov-10-15	539.0	288.0	CYC10Nov2015Pool3	aIISNP214	IISNP214	chr1	161019040.0	G	C	4071.0	4349.0	0.483492	0.516508	8420.0	8424.0	4.0	0.000475	chr1_161018464_161019586	577.0	0.483492	0.516263	0.483262	0.483262	C	G	CG	IISNP214 CG	NaN	AVBlank2-Nov-10-15	1.037265	0.999525	True	0.000187	0.483305	Recipient Hetero
AVBlank2-Nov-10-15	540.0	288.0	CYC10Nov2015Pool3	aIISNP242	IISNP242	chr1	179876988.0	C	G	3.0	21134.0	0.000142	0.999858	21137.0	21139.0	2.0	0.000095	chr1_179876419_179877532	570.0	0.000142	0.999763	0.000142	0.000142	G	C	GC	IISNP242 GC	NaN	AVBlank2-Nov-10-15	2.602889	0.999905	True	0.000182	-0.000040	Recipient Homo
AVBlank2-Nov-10-15	541.0	288.0	CYC10Nov2015Pool3	aIISNP264	IISNP264	chr1	205554085.0	G	C	6.0	13262.0	0.000452	0.999548	13268.0	13280.0	12.0	0.000904	chr1_205553518_205554618	568.0	0.000452	0.998645	0.000452	0.000452	C	G	CG	IISNP264 CG	NaN	AVBlank2-Nov-10-15	1.635194	0.999096	True	0.000187	0.000265	Recipient Homo
AVBlank2-Nov-10-15	542.0	288.0	CYC10Nov2015Pool3	aIISNP257	IISNP257	chr1	214837110.0	C	G	6.0	8807.0	0.000681	0.999319	8813.0	8813.0	0.0	0.000000	chr1_214836531_214837646	580.0	0.000681	0.999319	0.000681	0.000681	G	C	GC	IISNP257 GC	NaN	AVBlank2-Nov-10-15	1.085163	1.000000	True	0.000182	0.000499	Recipient Homo
AVBlank2-Nov-10-15	628.0	288.0	CYC10Nov2015Pool3	aIISNP82	IISNP82	chr17	80461935.0	C	T	568.0	1614.0	0.260312	0.739688	2182.0	2184.0	2.0	0.000916	chr17_80461344_80462465	592.0	0.260312	0.739011	0.260073	0.260073	T	C	TC	IISNP82 TC	NaN	AVBlank2-Nov-10-15	0.268920	0.999084	True	0.001475	0.258836	Recipient Hetero
AVBlank2-Nov-10-15	629.0	288.0	CYC10Nov2015Pool3	aIISNP51	IISNP51	chr17	80526139.0	A	G	796.0	469.0	0.629249	0.370751	1265.0	1265.0	0.0	0.000000	chr17_80525564_80526669	576.0	0.370751	0.370751	0.629249	0.370751	A	G	AG	IISNP51 AG	NaN	AVBlank2-Nov-10-15	0.155762	1.000000	True	0.001456	0.369295	Recipient Hetero
AVBlank2-Nov-10-15	630.0	288.0	CYC10Nov2015Pool3	aIISNP66	IISNP66	chr17	80531643.0	C	G	4124.0	1765.0	0.700289	0.299711	5889.0	5892.0	3.0	0.000509	chr17_80531082_80532207	562.0	0.299711	0.299559	0.699932	0.299559	C	G	CG	IISNP66 CG	NaN	AVBlank2-Nov-10-15	0.725494	0.999491	True	0.000187	0.299524	Recipient Hetero
AVBlank2-Nov-10-15	631.0	288.0	CYC10Nov2015Pool3	aIISNP74	IISNP74	chr17	80715702.0	G	C	10449.0	6.0	0.999426	0.000574	10455.0	10456.0	1.0	0.000096	chr17_80715140_80716246	563.0	0.000574	0.000574	0.999331	0.000574	G	C	GC	IISNP74 GC	NaN	AVBlank2-Nov-10-15	1.287469	0.999904	True	0.000182	0.000392	Recipient Homo
AVBlank2-Nov-10-15	632.0	288.0	CYC10Nov2015Pool3	aIISNP52	IISNP52	chr17	80765788.0	T	C	8951.0	2.0	0.999777	0.000223	8953.0	8959.0	6.0	0.000670	chr17_80765219_80766321	570.0	0.000223	0.000223	0.999107	0.000223	T	C	TC	IISNP52 TC	NaN	AVBlank2-Nov-10-15	1.103140	0.999330	True	0.001475	-0.001252	Recipient Homo
AVBlank2-Nov-10-15	633.0	288.0	CYC10Nov2015Pool3	aIISNP92	IISNP92	chr18	9749879.0	G	A	6244.0	6598.0	0.486217	0.513783	12842.0	12847.0	5.0	0.000389	chr18_9749309_9750416	571.0	0.486217	0.513583	0.486028	0.486028	A	G	AG	IISNP92 AG	NaN	AVBlank2-Nov-10-15	1.581878	0.999611	True	0.001456	0.484761	Recipient Hetero
AVBlank2-Nov-10-15	634.0	288.0	CYC10Nov2015Pool3	aIISNP87	IISNP87	chr18	29311034.0	G	A	3268.0	3907.0	0.455470	0.544530	7175.0	7175.0	0.0	0.000000	chr18_29310484_29311587	551.0	0.455470	0.544530	0.455470	0.455470	A	G	AG	IISNP87 AG	NaN	AVBlank2-Nov-10-15	0.883473	1.000000	True	0.001456	0.454014	Recipient Hetero
AVBlank2-Nov-10-15	635.0	288.0	CYC10Nov2015Pool3	aIISNP186	IISNP186	chr18	44561100.0	C	G	3709.0	4277.0	0.464438	0.535562	7986.0	7989.0	3.0	0.000376	chr18_44560549_44561667	552.0	0.464438	0.535361	0.464263	0.464263	G	C	GC	IISNP186 GC	NaN	AVBlank2-Nov-10-15	0.983702	0.999624	True	0.000182	0.464256	Recipient Hetero
AVBlank2-Nov-10-15	636.0	288.0	CYC10Nov2015Pool3	aIISNP69	IISNP69	chr18	47371014.0	C	G	9.0	10479.0	0.000858	0.999142	10488.0	10490.0	2.0	0.000191	chr18_47370442_47371541	573.0	0.000858	0.998951	0.000858	0.000858	G	C	GC	IISNP69 GC	NaN	AVBlank2-Nov-10-15	1.291655	0.999809	True	0.000182	0.000676	Recipient Homo
AVBlank2-Nov-10-15	637.0	288.0	CYC10Nov2015Pool3	aIISNP232	IISNP232	chr18	48333203.0	C	G	6398.0	3.0	0.999531	0.000469	6401.0	6493.0	92.0	0.014169	chr18_48332670_48333785	534.0	0.000469	0.000462	0.985369	0.000462	C	G	CG	IISNP232 CG	NaN	AVBlank2-Nov-10-15	0.799497	0.985831	True	0.000187	0.000282	Recipient Homo
AVBlank2-Nov-10-15	638.0	288.0	CYC10Nov2015Pool3	aIISNP41	IISNP41	chr18	55225777.0	T	C	15.0	9880.0	0.001516	0.998484	9895.0	9895.0	0.0	0.000000	chr18_55225209_55226308	569.0	0.001516	0.998484	0.001516	0.001516	C	T	CT	IISNP41 CT	NaN	AVBlank2-Nov-10-15	1.218392	1.000000	True	0.000984	0.000532	Recipient Homo
AVBlank2-Nov-10-15	639.0	288.0	CYC10Nov2015Pool3	aIISNP211	IISNP211	chr18	56204945.0	C	G	5634.0	7166.0	0.440156	0.559844	12800.0	12805.0	5.0	0.000390	chr18_56204367_56205474	579.0	0.440156	0.559625	0.439984	0.439984	G	C	GC	IISNP211 GC	NaN	AVBlank2-Nov-10-15	1.576706	0.999610	True	0.000182	0.439974	Recipient Hetero
AVBlank2-Nov-10-15	543.0	288.0	CYC10Nov2015Pool3	aIISNP19	IISNP19	chr1	233448413.0	C	T	4036.0	3672.0	0.523612	0.476388	7708.0	7708.0	0.0	0.000000	chr1_233447873_233448982	541.0	0.476388	0.476388	0.523612	0.476388	C	T	CT	IISNP19 CT	NaN	AVBlank2-Nov-10-15	0.949102	1.000000	True	0.000984	0.475404	Recipient Hetero
AVBlank2-Nov-10-15	544.0	288.0	CYC10Nov2015Pool3	aIISNP238	IISNP238	chr1	234041422.0	G	C	3.0	9249.0	0.000324	0.999676	9252.0	9252.0	0.0	0.000000	chr1_234040863_234041981	560.0	0.000324	0.999676	0.000324	0.000324	C	G	CG	IISNP238 CG	NaN	AVBlank2-Nov-10-15	1.139218	1.000000	True	0.000187	0.000137	Recipient Homo
AVBlank2-Nov-10-15	545.0	288.0	CYC10Nov2015Pool3	aIISNP104	IISNP104	chr1	236381825.0	G	C	3316.0	0.0	1.000000	0.000000	3316.0	3316.0	0.0	0.000000	chr1_236381266_236382387	560.0	0.000000	0.000000	1.000000	0.000000	G	C	GC	IISNP104 GC	NaN	AVBlank2-Nov-10-15	0.408306	1.000000	True	0.000182	-0.000182	Recipient Homo
AVBlank2-Nov-10-15	546.0	288.0	CYC10Nov2015Pool3	aIISNP83	IISNP83	chr1	239881926.0	A	G	8857.0	2.0	0.999774	0.000226	8859.0	8863.0	4.0	0.000451	chr1_239881353_239882471	574.0	0.000226	0.000226	0.999323	0.000226	A	G	AG	IISNP83 AG	NaN	AVBlank2-Nov-10-15	1.091320	0.999549	True	0.001456	-0.001230	Recipient Homo
AVBlank2-Nov-10-15	734.0	288.0	CYC10Nov2015Pool3	aIISNP60	IISNP60	chr5	178690725.0	G	A	9014.0	17.0	0.998118	0.001882	9031.0	9031.0	0.0	0.000000	chr5_178690152_178691259	574.0	0.001882	0.001882	0.998118	0.001882	G	A	GA	IISNP60 GA	NaN	AVBlank2-Nov-10-15	1.112006	1.000000	True	0.000987	0.000895	Recipient Homo
AVBlank2-Nov-10-15	735.0	288.0	CYC10Nov2015Pool3	aIISNP225	IISNP225	chr5	180046344.0	G	C	0.0	1454.0	0.000000	1.000000	1454.0	1454.0	0.0	0.000000	chr5_180045793_180046900	552.0	0.000000	1.000000	0.000000	0.000000	C	G	CG	IISNP225 CG	NaN	AVBlank2-Nov-10-15	0.179034	1.000000	True	0.000187	-0.000187	Recipient Homo
AVBlank2-Nov-10-15	736.0	288.0	CYC10Nov2015Pool3	aIISNP32	IISNP32	chr6	12059954.0	G	A	3511.0	3197.0	0.523405	0.476595	6708.0	6712.0	4.0	0.000596	chr6_12059397_12060504	558.0	0.476595	0.476311	0.523093	0.476311	G	A	GA	IISNP32 GA	NaN	AVBlank2-Nov-10-15	0.826462	0.999404	True	0.000987	0.475608	Recipient Hetero
AVBlank2-Nov-10-15	640.0	288.0	CYC10Nov2015Pool3	aIISNP130	IISNP130	chr19	619021.0	G	C	254.0	0.0	1.000000	0.000000	254.0	254.0	0.0	0.000000	chr19_618466_619585	556.0	0.000000	0.000000	1.000000	0.000000	G	C	GC	IISNP130 GC	NaN	AVBlank2-Nov-10-15	0.031276	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	641.0	288.0	CYC10Nov2015Pool3	aIISNP226	IISNP226	chr19	7986638.0	C	G	0.0	1088.0	0.000000	1.000000	1088.0	1088.0	0.0	0.000000	chr19_7986080_7987202	559.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP226 GC	NaN	AVBlank2-Nov-10-15	0.133968	1.000000	True	0.000182	-0.000182	Recipient Homo
AVBlank2-Nov-10-15	642.0	288.0	CYC10Nov2015Pool3	aIISNP159	IISNP159	chr19	10084292.0	C	G	4315.0	4.0	0.999074	0.000926	4319.0	4322.0	3.0	0.000694	chr19_10083723_10084832	570.0	0.000926	0.000925	0.998380	0.000925	C	G	CG	IISNP159 CG	NaN	AVBlank2-Nov-10-15	0.532177	0.999306	True	0.000187	0.000739	Recipient Homo
AVBlank2-Nov-10-15	643.0	288.0	CYC10Nov2015Pool3	aIISNP100	IISNP100	chr19	10600442.0	G	C	3334.0	3118.0	0.516739	0.483261	6452.0	6455.0	3.0	0.000465	chr19_10599851_10600965	592.0	0.483261	0.483036	0.516499	0.483036	G	C	GC	IISNP100 GC	NaN	AVBlank2-Nov-10-15	0.794818	0.999535	True	0.000182	0.483079	Recipient Hetero
AVBlank2-Nov-10-15	644.0	288.0	CYC10Nov2015Pool3	aIISNP217	IISNP217	chr19	10670184.0	C	G	39.0	65.0	0.375000	0.625000	104.0	104.0	0.0	0.000000	chr19_10669614_10670743	571.0	0.375000	0.625000	0.375000	0.375000	G	C	GC	IISNP217 GC	NaN	AVBlank2-Nov-10-15	0.012806	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	645.0	288.0	CYC10Nov2015Pool3	aIISNP274	IISNP274	chr19	18377647.0	G	C	1136.0	1393.0	0.449189	0.550811	2529.0	2536.0	7.0	0.002760	chr19_18377056_18378185	592.0	0.449189	0.549290	0.447950	0.447950	C	G	CG	IISNP274 CG	NaN	AVBlank2-Nov-10-15	0.312263	0.997240	True	0.000187	0.449002	Recipient Hetero
AVBlank2-Nov-10-15	646.0	288.0	CYC10Nov2015Pool3	aIISNP171	IISNP171	chr19	36278470.0	C	G	113.0	0.0	1.000000	0.000000	113.0	113.0	0.0	0.000000	chr19_36277889_36279010	582.0	0.000000	0.000000	1.000000	0.000000	C	G	CG	IISNP171 CG	NaN	AVBlank2-Nov-10-15	0.013914	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	647.0	288.0	CYC10Nov2015Pool3	aIISNP13	IISNP13	chr19	39559807.0	A	C	7381.0	6094.0	0.547755	0.452245	13475.0	13482.0	7.0	0.000519	chr19_39559236_39560337	572.0	0.452245	0.452010	0.547471	0.452010	A	C	AC	IISNP13 AC	NaN	AVBlank2-Nov-10-15	1.660067	0.999481	True	0.000181	0.452064	Recipient Hetero
AVBlank2-Nov-10-15	648.0	288.0	CYC10Nov2015Pool3	aIISNP95	IISNP95	chr19	41939297.0	C	G	2404.0	2519.0	0.488320	0.511680	4923.0	4927.0	4.0	0.000812	chr19_41938759_41939869	539.0	0.488320	0.511264	0.487924	0.487924	G	C	GC	IISNP95 GC	NaN	AVBlank2-Nov-10-15	0.606672	0.999188	True	0.000182	0.488138	Recipient Hetero
AVBlank2-Nov-10-15	649.0	288.0	CYC10Nov2015Pool3	aIISNP117	IISNP117	chr19	44303066.0	C	G	752.0	1366.0	0.355052	0.644948	2118.0	2120.0	2.0	0.000943	chr19_44302506_44303626	561.0	0.355052	0.644340	0.354717	0.354717	G	C	GC	IISNP117 GC	NaN	AVBlank2-Nov-10-15	0.261040	0.999057	True	0.000182	0.354870	Recipient Hetero
AVBlank2-Nov-10-15	650.0	288.0	CYC10Nov2015Pool3	aIISNP136	IISNP136	chr19	44981883.0	C	G	4728.0	11.0	0.997679	0.002321	4739.0	4741.0	2.0	0.000422	chr19_44981323_44982437	561.0	0.002321	0.002320	0.997258	0.002320	C	G	CG	IISNP136 CG	NaN	AVBlank2-Nov-10-15	0.583769	0.999578	True	0.000187	0.002134	Recipient Homo
AVBlank2-Nov-10-15	651.0	288.0	CYC10Nov2015Pool3	aIISNP126	IISNP126	chr19	48621036.0	C	G	10732.0	9512.0	0.530132	0.469868	20244.0	20265.0	21.0	0.001036	chr19_48620482_48621601	555.0	0.469868	0.469381	0.529583	0.469381	C	G	CG	IISNP126 CG	NaN	AVBlank2-Nov-10-15	2.495271	0.998964	True	0.000187	0.469681	Recipient Hetero
AVBlank2-Nov-10-15	652.0	288.0	CYC10Nov2015Pool3	aIISNP218	IISNP218	chr19	52115645.0	G	C	0.0	5036.0	0.000000	1.000000	5036.0	5036.0	0.0	0.000000	chr19_52115107_52116208	539.0	0.000000	1.000000	0.000000	0.000000	C	G	CG	IISNP218 CG	NaN	AVBlank2-Nov-10-15	0.620093	1.000000	True	0.000187	-0.000187	Recipient Homo
AVBlank2-Nov-10-15	653.0	288.0	CYC10Nov2015Pool3	aIISNP190	IISNP190	chr19	53344118.0	C	G	6.0	12280.0	0.000488	0.999512	12286.0	12288.0	2.0	0.000163	chr19_53343564_53344688	555.0	0.000488	0.999349	0.000488	0.000488	G	C	GC	IISNP190 GC	NaN	AVBlank2-Nov-10-15	1.513047	0.999837	True	0.000182	0.000306	Recipient Homo
AVBlank2-Nov-10-15	654.0	288.0	CYC10Nov2015Pool3	aIISNP199	IISNP199	chr19	54664209.0	G	C	9934.0	8.0	0.999195	0.000805	9942.0	9942.0	0.0	0.000000	chr19_54663644_54664769	566.0	0.000805	0.000805	0.999195	0.000805	G	C	GC	IISNP199 GC	NaN	AVBlank2-Nov-10-15	1.224179	1.000000	True	0.000182	0.000623	Recipient Homo
AVBlank2-Nov-10-15	737.0	288.0	CYC10Nov2015Pool3	aIISNP279	IISNP279	chr6	26509330.0	C	G	8385.0	5818.0	0.590368	0.409632	14203.0	14211.0	8.0	0.000563	chr6_26508757_26509875	574.0	0.409632	0.409401	0.590036	0.409401	C	G	CG	IISNP279 CG	NaN	AVBlank2-Nov-10-15	1.749830	0.999437	True	0.000187	0.409445	Recipient Hetero
AVBlank2-Nov-10-15	738.0	288.0	CYC10Nov2015Pool3	aIISNP261	IISNP261	chr6	36287312.0	G	C	3768.0	3450.0	0.522028	0.477972	7218.0	7218.0	0.0	0.000000	chr6_36286765_36287879	548.0	0.477972	0.477972	0.522028	0.477972	G	C	GC	IISNP261 GC	NaN	AVBlank2-Nov-10-15	0.888767	1.000000	True	0.000182	0.477790	Recipient Hetero
AVBlank2-Nov-10-15	739.0	288.0	CYC10Nov2015Pool3	aIISNP134	IISNP134	chr6	38781866.0	C	G	2045.0	2724.0	0.428811	0.571189	4769.0	4769.0	0.0	0.000000	chr6_38781300_38782411	567.0	0.428811	0.571189	0.428811	0.428811	G	C	GC	IISNP134 GC	NaN	AVBlank2-Nov-10-15	0.587217	1.000000	True	0.000182	0.428629	Recipient Hetero
AVBlank2-Nov-10-15	740.0	288.0	CYC10Nov2015Pool3	aIISNP144	IISNP144	chr6	41773576.0	G	C	872.0	9634.0	0.083000	0.917000	10506.0	10515.0	9.0	0.000856	chr6_41773010_41774136	567.0	0.083000	0.916215	0.082929	0.082929	C	G	CG	IISNP144 CG	NaN	AVBlank2-Nov-10-15	1.294734	0.999144	True	0.000187	0.082813	Recipient Homo
AVBlank2-Nov-10-15	741.0	288.0	CYC10Nov2015Pool3	aIISNP263	IISNP263	chr6	46107752.0	C	G	14853.0	37.0	0.997515	0.002485	14890.0	14895.0	5.0	0.000336	chr6_46107197_46108304	556.0	0.002485	0.002484	0.997180	0.002484	C	G	CG	IISNP263 CG	NaN	AVBlank2-Nov-10-15	1.834052	0.999664	True	0.000187	0.002298	Recipient Homo
AVBlank2-Nov-10-15	742.0	288.0	CYC10Nov2015Pool3	aIISNP143	IISNP143	chr6	52617731.0	C	G	2202.0	1896.0	0.537335	0.462665	4098.0	4098.0	0.0	0.000000	chr6_52617161_52618275	571.0	0.462665	0.462665	0.537335	0.462665	C	G	CG	IISNP143 CG	NaN	AVBlank2-Nov-10-15	0.504595	1.000000	True	0.000187	0.462478	Recipient Hetero
AVBlank2-Nov-10-15	743.0	288.0	CYC10Nov2015Pool3	aIISNP56	IISNP56	chr6	55155704.0	C	A	34.0	10933.0	0.003100	0.996900	10967.0	10967.0	0.0	0.000000	chr6_55155134_55156239	571.0	0.003100	0.996900	0.003100	0.003100	A	C	AC	IISNP56 AC	NaN	AVBlank2-Nov-10-15	1.350389	1.000000	True	0.000181	0.002919	Recipient Homo
AVBlank2-Nov-10-15	744.0	288.0	CYC10Nov2015Pool3	aIISNP246	IISNP246	chr6	56482801.0	C	G	17804.0	5.0	0.999719	0.000281	17809.0	17811.0	2.0	0.000112	chr6_56482232_56483352	570.0	0.000281	0.000281	0.999607	0.000281	C	G	CG	IISNP246 CG	NaN	AVBlank2-Nov-10-15	2.193105	0.999888	True	0.000187	0.000094	Recipient Homo
AVBlank2-Nov-10-15	745.0	288.0	CYC10Nov2015Pool3	aIISNP237	IISNP237	chr6	74073531.0	C	G	6353.0	2.0	0.999685	0.000315	6355.0	6361.0	6.0	0.000943	chr6_74072980_74074097	552.0	0.000315	0.000314	0.998742	0.000314	C	G	CG	IISNP237 CG	NaN	AVBlank2-Nov-10-15	0.783243	0.999057	True	0.000187	0.000128	Recipient Homo
AVBlank2-Nov-10-15	746.0	288.0	CYC10Nov2015Pool3	aIISNP202	IISNP202	chr6	76660551.0	G	C	13352.0	4.0	0.999701	0.000299	13356.0	13356.0	0.0	0.000000	chr6_76659989_76661118	563.0	0.000299	0.000299	0.999701	0.000299	G	C	GC	IISNP202 GC	NaN	AVBlank2-Nov-10-15	1.644552	1.000000	True	0.000182	0.000117	Recipient Homo
AVBlank2-Nov-10-15	747.0	288.0	CYC10Nov2015Pool3	aIISNP36	IISNP36	chr6	120560694.0	T	A	6.0	4146.0	0.001445	0.998555	4152.0	4154.0	2.0	0.000481	chr6_120560128_120561231	567.0	0.001445	0.998074	0.001444	0.001444	A	T	AT	IISNP36 AT	NaN	AVBlank2-Nov-10-15	0.511491	0.999519	True	0.000350	0.001095	Recipient Homo
AVBlank2-Nov-10-15	748.0	288.0	CYC10Nov2015Pool3	aIISNP34	IISNP34	chr6	123894978.0	C	A	0.0	785.0	0.000000	1.000000	785.0	785.0	0.0	0.000000	chr6_123894407_123895512	572.0	0.000000	1.000000	0.000000	0.000000	A	C	AC	IISNP34 AC	NaN	AVBlank2-Nov-10-15	0.096659	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	749.0	288.0	CYC10Nov2015Pool3	aIISNP164	IISNP164	chr6	126278230.0	G	C	11355.0	13.0	0.998856	0.001144	11368.0	11371.0	3.0	0.000264	chr6_126277677_126278784	554.0	0.001144	0.001143	0.998593	0.001143	G	C	GC	IISNP164 GC	NaN	AVBlank2-Nov-10-15	1.400135	0.999736	True	0.000182	0.000962	Recipient Homo
AVBlank2-Nov-10-15	750.0	288.0	CYC10Nov2015Pool3	aIISNP54	IISNP54	chr6	127463376.0	C	A	1379.0	1063.0	0.564701	0.435299	2442.0	2442.0	0.0	0.000000	chr6_127462805_127463913	572.0	0.435299	0.435299	0.564701	0.435299	C	A	CA	IISNP54 CA	NaN	AVBlank2-Nov-10-15	0.300689	1.000000	True	0.000474	0.434824	Recipient Hetero
AVBlank2-Nov-10-15	751.0	288.0	CYC10Nov2015Pool3	aIISNP247	IISNP247	chr6	138413333.0	G	C	5953.0	6431.0	0.480701	0.519299	12384.0	12411.0	27.0	0.002175	chr6_138412785_138413907	549.0	0.480701	0.518169	0.479655	0.479655	C	G	CG	IISNP247 CG	NaN	AVBlank2-Nov-10-15	1.528192	0.997825	True	0.000187	0.480514	Recipient Hetero
AVBlank2-Nov-10-15	752.0	288.0	CYC10Nov2015Pool3	aIISNP50	IISNP50	chr6	148761456.0	G	C	11051.0	7268.0	0.603253	0.396747	18319.0	18331.0	12.0	0.000655	chr6_148760890_148761999	567.0	0.396747	0.396487	0.602859	0.396487	G	C	GC	IISNP50 GC	NaN	AVBlank2-Nov-10-15	2.257134	0.999345	True	0.000182	0.396565	Recipient Hetero
AVBlank2-Nov-10-15	753.0	288.0	CYC10Nov2015Pool3	aIISNP172	IISNP172	chr6	150209717.0	C	G	293.0	241.0	0.548689	0.451311	534.0	534.0	0.0	0.000000	chr6_150209159_150210278	559.0	0.451311	0.451311	0.548689	0.451311	C	G	CG	IISNP172 CG	NaN	AVBlank2-Nov-10-15	0.065753	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	754.0	288.0	CYC10Nov2015Pool3	aIISNP45	IISNP45	chr6	152697706.0	C	T	5591.0	4933.0	0.531262	0.468738	10524.0	10524.0	0.0	0.000000	chr6_152697130_152698240	577.0	0.468738	0.468738	0.531262	0.468738	C	T	CT	IISNP45 CT	NaN	AVBlank2-Nov-10-15	1.295842	1.000000	True	0.000984	0.467754	Recipient Hetero
AVBlank2-Nov-10-15	755.0	288.0	CYC10Nov2015Pool3	aIISNP122	IISNP122	chr6	170862300.0	G	C	7025.0	4267.0	0.622122	0.377878	11292.0	11296.0	4.0	0.000354	chr6_170861722_170862832	579.0	0.377878	0.377744	0.621902	0.377744	G	C	GC	IISNP122 GC	NaN	AVBlank2-Nov-10-15	1.390900	0.999646	True	0.000182	0.377696	Recipient Hetero
AVBlank2-Nov-10-15	756.0	288.0	CYC10Nov2015Pool3	aIISNP267	IISNP267	chr7	4026944.0	C	G	9141.0	39.0	0.995752	0.004248	9180.0	9228.0	48.0	0.005202	chr7_4026399_4027521	546.0	0.004248	0.004226	0.990572	0.004226	C	G	CG	IISNP267 CG	NaN	AVBlank2-Nov-10-15	1.136263	0.994798	True	0.000187	0.004061	Recipient Homo
AVBlank2-Nov-10-15	547.0	288.0	CYC10Nov2015Pool3	aIISNP131	IISNP131	chr1	247752019.0	G	C	3678.0	3.0	0.999185	0.000815	3681.0	3682.0	1.0	0.000272	chr1_247751483_247752601	537.0	0.000815	0.000815	0.998914	0.000815	G	C	GC	IISNP131 GC	NaN	AVBlank2-Nov-10-15	0.453372	0.999728	True	0.000182	0.000633	Recipient Homo
AVBlank2-Nov-10-15	548.0	288.0	CYC10Nov2015Pool3	aIISNP121	IISNP121	chr10	5136651.0	C	G	3361.0	3800.0	0.469348	0.530652	7161.0	7162.0	1.0	0.000140	chr10_5136059_5137186	593.0	0.469348	0.530578	0.469282	0.469282	G	C	GC	IISNP121 GC	NaN	AVBlank2-Nov-10-15	0.881872	0.999860	True	0.000182	0.469166	Recipient Hetero
AVBlank2-Nov-10-15	549.0	288.0	CYC10Nov2015Pool3	aIISNP244	IISNP244	chr10	21414892.0	C	G	8435.0	3.0	0.999644	0.000356	8438.0	8441.0	3.0	0.000355	chr10_21414322_21415442	571.0	0.000356	0.000355	0.999289	0.000355	C	G	CG	IISNP244 CG	NaN	AVBlank2-Nov-10-15	1.039358	0.999645	True	0.000187	0.000169	Recipient Homo
AVBlank2-Nov-10-15	550.0	288.0	CYC10Nov2015Pool3	aIISNP114	IISNP114	chr10	24873369.0	C	G	2591.0	2917.0	0.470407	0.529593	5508.0	5728.0	220.0	0.038408	chr10_24872787_24873906	583.0	0.470407	0.509253	0.452339	0.452339	G	C	GC	IISNP114 GC	NaN	AVBlank2-Nov-10-15	0.705301	0.961592	True	0.000182	0.470225	Recipient Hetero
AVBlank2-Nov-10-15	551.0	288.0	CYC10Nov2015Pool3	aIISNP178	IISNP178	chr10	25701341.0	C	G	2.0	3895.0	0.000513	0.999487	3897.0	3897.0	0.0	0.000000	chr10_25700758_25701869	584.0	0.000513	0.999487	0.000513	0.000513	G	C	GC	IISNP178 GC	NaN	AVBlank2-Nov-10-15	0.479846	1.000000	True	0.000182	0.000331	Recipient Homo
AVBlank2-Nov-10-15	552.0	288.0	CYC10Nov2015Pool3	aIISNP181	IISNP181	chr10	38344700.0	C	G	5960.0	222.0	0.964089	0.035911	6182.0	6198.0	16.0	0.002581	chr10_38344113_38345242	588.0	0.035911	0.035818	0.961601	0.035818	C	G	CG	IISNP181 CG	NaN	AVBlank2-Nov-10-15	0.763173	0.997419	True	0.000187	0.035724	Recipient Homo
AVBlank2-Nov-10-15	553.0	288.0	CYC10Nov2015Pool3	aIISNP215	IISNP215	chr10	69934258.0	C	G	2879.0	2771.0	0.509558	0.490442	5650.0	5655.0	5.0	0.000884	chr10_69933675_69934782	584.0	0.490442	0.490009	0.509107	0.490009	C	G	CG	IISNP215 CG	NaN	AVBlank2-Nov-10-15	0.696312	0.999116	True	0.000187	0.490256	Recipient Hetero
AVBlank2-Nov-10-15	554.0	288.0	CYC10Nov2015Pool3	aIISNP165	IISNP165	chr10	90342837.0	C	G	3640.0	2446.0	0.598094	0.401906	6086.0	6086.0	0.0	0.000000	chr10_90342263_90343376	575.0	0.401906	0.401906	0.598094	0.401906	C	G	CG	IISNP165 CG	NaN	AVBlank2-Nov-10-15	0.749382	1.000000	True	0.000187	0.401719	Recipient Hetero
AVBlank2-Nov-10-15	555.0	288.0	CYC10Nov2015Pool3	aIISNP35	IISNP35	chr10	97172595.0	T	C	6102.0	6577.0	0.481268	0.518732	12679.0	12679.0	0.0	0.000000	chr10_97172060_97173166	536.0	0.481268	0.518732	0.481268	0.481268	C	T	CT	IISNP35 CT	NaN	AVBlank2-Nov-10-15	1.561192	1.000000	True	0.000984	0.480284	Recipient Hetero
AVBlank2-Nov-10-15	556.0	288.0	CYC10Nov2015Pool3	aIISNP154	IISNP154	chr10	99439541.0	G	C	8472.0	6.0	0.999292	0.000708	8478.0	8480.0	2.0	0.000236	chr10_99438974_99440086	568.0	0.000708	0.000708	0.999057	0.000708	G	C	GC	IISNP154 GC	NaN	AVBlank2-Nov-10-15	1.044160	0.999764	True	0.000182	0.000526	Recipient Homo
AVBlank2-Nov-10-15	557.0	288.0	CYC10Nov2015Pool3	aIISNP256	IISNP256	chr10	114053546.0	C	G	0.0	623.0	0.000000	1.000000	623.0	623.0	0.0	0.000000	chr10_114052989_114054096	558.0	0.000000	1.000000	0.000000	0.000000	G	C	GC	IISNP256 GC	NaN	AVBlank2-Nov-10-15	0.076711	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	558.0	288.0	CYC10Nov2015Pool3	aIISNP189	IISNP189	chr10	126714714.0	G	C	3760.0	3.0	0.999203	0.000797	3763.0	3765.0	2.0	0.000531	chr10_126714134_126715248	581.0	0.000797	0.000797	0.998672	0.000797	G	C	GC	IISNP189 GC	NaN	AVBlank2-Nov-10-15	0.463592	0.999469	True	0.000182	0.000615	Recipient Homo
AVBlank2-Nov-10-15	559.0	288.0	CYC10Nov2015Pool3	aIISNP204	IISNP204	chr10	128019025.0	C	G	12652.0	7194.0	0.637509	0.362491	19846.0	19849.0	3.0	0.000151	chr10_128018457_128019577	569.0	0.362491	0.362436	0.637412	0.362436	C	G	CG	IISNP204 CG	NaN	AVBlank2-Nov-10-15	2.444049	0.999849	True	0.000187	0.362304	Recipient Hetero
AVBlank2-Nov-10-15	560.0	288.0	CYC10Nov2015Pool3	aIISNP110	IISNP110	chr10	129899778.0	G	C	7941.0	1232.0	0.865693	0.134307	9173.0	9174.0	1.0	0.000109	chr10_129899187_129900315	592.0	0.134307	0.134293	0.865598	0.134293	G	C	GC	IISNP110 GC	NaN	AVBlank2-Nov-10-15	1.129614	0.999891	True	0.000182	0.134125	Recipient Hetero
AVBlank2-Nov-10-15	561.0	288.0	CYC10Nov2015Pool3	aIISNP239	IISNP239	chr11	299411.0	C	G	1225.0	863.0	0.586686	0.413314	2088.0	2088.0	0.0	0.000000	chr11_298837_299939	575.0	0.413314	0.413314	0.586686	0.413314	C	G	CG	IISNP239 CG	NaN	AVBlank2-Nov-10-15	0.257100	1.000000	True	0.000187	0.413127	Recipient Hetero
AVBlank2-Nov-10-15	562.0	288.0	CYC10Nov2015Pool3	aIISNP187	IISNP187	chr11	4567335.0	C	G	8.0	8182.0	0.000977	0.999023	8190.0	8190.0	0.0	0.000000	chr11_4566780_4567909	556.0	0.000977	0.999023	0.000977	0.000977	G	C	GC	IISNP187 GC	NaN	AVBlank2-Nov-10-15	1.008452	1.000000	True	0.000182	0.000795	Recipient Homo
AVBlank2-Nov-10-15	563.0	288.0	CYC10Nov2015Pool3	aIISNP25	IISNP25	chr11	5098714.0	C	T	5092.0	10.0	0.998040	0.001960	5102.0	5103.0	1.0	0.000196	chr11_5098168_5099267	547.0	0.001960	0.001960	0.997844	0.001960	C	T	CT	IISNP25 CT	NaN	AVBlank2-Nov-10-15	0.628343	0.999804	True	0.000984	0.000976	Recipient Homo
AVBlank2-Nov-10-15	564.0	288.0	CYC10Nov2015Pool3	aIISNP24	IISNP24	chr11	5099393.0	T	A	17359.0	6.0	0.999654	0.000346	17365.0	17374.0	9.0	0.000518	chr11_5098828_5099937	566.0	0.000346	0.000345	0.999137	0.000345	T	A	TA	IISNP24 TA	NaN	AVBlank2-Nov-10-15	2.139297	0.999482	True	0.000269	0.000077	Recipient Homo
AVBlank2-Nov-10-15	565.0	288.0	CYC10Nov2015Pool3	aIISNP38	IISNP38	chr11	5709028.0	C	T	8611.0	7628.0	0.530267	0.469733	16239.0	16239.0	0.0	0.000000	chr11_5708471_5709577	558.0	0.469733	0.469733	0.530267	0.469733	C	T	CT	IISNP38 CT	NaN	AVBlank2-Nov-10-15	1.999542	1.000000	True	0.000984	0.468749	Recipient Hetero
AVBlank2-Nov-10-15	566.0	288.0	CYC10Nov2015Pool3	aIISNP206	IISNP206	chr11	8947283.0	G	C	8.0	12119.0	0.000660	0.999340	12127.0	12127.0	0.0	0.000000	chr11_8946706_8947820	578.0	0.000660	0.999340	0.000660	0.000660	C	G	CG	IISNP206 CG	NaN	AVBlank2-Nov-10-15	1.493223	1.000000	True	0.000187	0.000473	Recipient Homo
AVBlank2-Nov-10-15	567.0	288.0	CYC10Nov2015Pool3	aIISNP84	IISNP84	chr11	11096221.0	C	T	11570.0	22.0	0.998102	0.001898	11592.0	11595.0	3.0	0.000259	chr11_11095660_11096769	562.0	0.001898	0.001897	0.997844	0.001897	C	T	CT	IISNP84 CT	NaN	AVBlank2-Nov-10-15	1.427716	0.999741	True	0.000984	0.000914	Recipient Homo
AVBlank2-Nov-10-15	568.0	288.0	CYC10Nov2015Pool3	aIISNP109	IISNP109	chr11	11292700.0	G	C	11586.0	0.0	1.000000	0.000000	11586.0	11589.0	3.0	0.000259	chr11_11292148_11293259	553.0	0.000000	0.000000	0.999741	0.000000	G	C	GC	IISNP109 GC	NaN	AVBlank2-Nov-10-15	1.426978	0.999741	True	0.000182	-0.000182	Recipient Homo
AVBlank2-Nov-10-15	569.0	288.0	CYC10Nov2015Pool3	aIISNP107	IISNP107	chr11	17519742.0	C	G	639.0	807.0	0.441909	0.558091	1446.0	1447.0	1.0	0.000691	chr11_17519170_17520279	573.0	0.441909	0.557706	0.441603	0.441603	G	C	GC	IISNP107 GC	NaN	AVBlank2-Nov-10-15	0.178172	0.999309	True	0.000182	0.441727	Recipient Hetero
AVBlank2-Nov-10-15	655.0	288.0	CYC10Nov2015Pool3	aIISNP281	IISNP281	chr19	56423074.0	C	G	10219.0	18.0	0.998242	0.001758	10237.0	10237.0	0.0	0.000000	chr19_56422500_56423625	575.0	0.001758	0.001758	0.998242	0.001758	C	G	CG	IISNP281 CG	NaN	AVBlank2-Nov-10-15	1.260503	1.000000	True	0.000187	0.001571	Recipient Homo
AVBlank2-Nov-10-15	656.0	288.0	CYC10Nov2015Pool3	aIISNP94	IISNP94	chr19	57085769.0	G	C	17665.0	2.0	0.999887	0.000113	17667.0	17671.0	4.0	0.000226	chr19_57085220_57086327	550.0	0.000113	0.000113	0.999660	0.000113	G	C	GC	IISNP94 GC	NaN	AVBlank2-Nov-10-15	2.175867	0.999774	True	0.000182	-0.000069	Recipient Homo
AVBlank2-Nov-10-15	657.0	288.0	CYC10Nov2015Pool3	aIISNP248	IISNP248	chr19	57838018.0	C	G	4.0	3500.0	0.001142	0.998858	3504.0	3507.0	3.0	0.000855	chr19_57837471_57838600	548.0	0.001142	0.998004	0.001141	0.001141	G	C	GC	IISNP248 GC	NaN	AVBlank2-Nov-10-15	0.431824	0.999145	True	0.000182	0.000960	Recipient Homo
AVBlank2-Nov-10-15	658.0	288.0	CYC10Nov2015Pool3	aIISNP233	IISNP233	chr2	3469463.0	G	C	15633.0	34.0	0.997830	0.002170	15667.0	15674.0	7.0	0.000447	chr2_3468916_3470030	548.0	0.002170	0.002169	0.997384	0.002169	G	C	GC	IISNP233 GC	NaN	AVBlank2-Nov-10-15	1.929972	0.999553	True	0.000182	0.001988	Recipient Homo
AVBlank2-Nov-10-15	659.0	288.0	CYC10Nov2015Pool3	aIISNP28	IISNP28	chr2	10085722.0	G	A	7279.0	16.0	0.997807	0.002193	7295.0	7295.0	0.0	0.000000	chr2_10085153_10086253	570.0	0.002193	0.002193	0.997807	0.002193	G	A	GA	IISNP28 GA	NaN	AVBlank2-Nov-10-15	0.898248	1.000000	True	0.000987	0.001206	Recipient Homo
AVBlank2-Nov-10-15	660.0	288.0	CYC10Nov2015Pool3	aIISNP175	IISNP175	chr2	27324724.0	G	C	0.0	6956.0	0.000000	1.000000	6956.0	6958.0	2.0	0.000287	chr2_27324182_27325292	543.0	0.000000	0.999713	0.000000	0.000000	C	G	CG	IISNP175 CG	NaN	AVBlank2-Nov-10-15	0.856753	0.999713	True	0.000187	-0.000187	Recipient Homo
AVBlank2-Nov-10-15	661.0	288.0	CYC10Nov2015Pool3	aIISNP266	IISNP266	chr2	28824793.0	C	G	4.0	2.0	0.666667	0.333333	6.0	6.0	0.0	0.000000	chr2_28824241_28825363	553.0	0.333333	0.333333	0.666667	0.333333	C	G	CG	IISNP266 CG	NaN	AVBlank2-Nov-10-15	0.000739	1.000000	False	NaN	NaN	NaN
AVBlank2-Nov-10-15	662.0	288.0	CYC10Nov2015Pool3	aIISNP135	IISNP135	chr2	29416366.0	G	C	5263.0	4317.0	0.549374	0.450626	9580.0	9581.0	1.0	0.000104	chr2_29415814_29416943	553.0	0.450626	0.450579	0.549316	0.450579	G	C	GC	IISNP135 GC	NaN	AVBlank2-Nov-10-15	1.179728	0.999896	True	0.000182	0.450444	Recipient Hetero
AVBlank2-Nov-10-15	663.0	288.0	CYC10Nov2015Pool3	aIISNP148	IISNP148	chr2	75113789.0	C	G	4538.0	4730.0	0.489642	0.510358	9268.0	9272.0	4.0	0.000431	chr2_75113219_75114341	571.0	0.489642	0.510138	0.489431	0.489431	G	C	GC	IISNP148 GC	NaN	AVBlank2-Nov-10-15	1.141681	0.999569	True	0.000182	0.489460	Recipient Hetero
AVBlank2-Nov-10-15	757.0	288.0	CYC10Nov2015Pool3	aIISNP193	IISNP193	chr7	12269417.0	C	G	2227.0	4.0	0.998207	0.001793	2231.0	2231.0	0.0	0.000000	chr7_12268849_12269978	569.0	0.001793	0.001793	0.998207	0.001793	C	G	CG	IISNP193 CG	NaN	AVBlank2-Nov-10-15	0.274708	1.000000	True	0.000187	0.001606	Recipient Homo
AVBlank2-Nov-10-15	758.0	288.0	CYC10Nov2015Pool3	aIISNP22	IISNP22	chr7	13894276.0	A	G	9.0	10227.0	0.000879	0.999121	10236.0	10238.0	2.0	0.000195	chr7_13893713_13894820	564.0	0.000879	0.998926	0.000879	0.000879	G	A	GA	IISNP22 GA	NaN	AVBlank2-Nov-10-15	1.260626	0.999805	True	0.000987	-0.000108	Recipient Homo
AVBlank2-Nov-10-15	759.0	288.0	CYC10Nov2015Pool3	aIISNP203	IISNP203	chr7	20180717.0	C	G	2.0	13616.0	0.000147	0.999853	13618.0	13622.0	4.0	0.000294	chr7_20180151_20181280	567.0	0.000147	0.999560	0.000147	0.000147	G	C	GC	IISNP203 GC	NaN	AVBlank2-Nov-10-15	1.677305	0.999706	True	0.000182	-0.000035	Recipient Homo
AVBlank2-Nov-10-15	760.0	288.0	CYC10Nov2015Pool3	aIISNP185	IISNP185	chr7	25194665.0	G	C	7505.0	2.0	0.999734	0.000266	7507.0	7511.0	4.0	0.000533	chr7_25194102_25195226	564.0	0.000266	0.000266	0.999201	0.000266	G	C	GC	IISNP185 GC	NaN	AVBlank2-Nov-10-15	0.924845	0.999467	True	0.000182	0.000084	Recipient Homo
AVBlank2-Nov-10-15	761.0	288.0	CYC10Nov2015Pool3	aIISNP93	IISNP93	chr7	47925331.0	C	G	7889.0	0.0	1.000000	0.000000	7889.0	7912.0	23.0	0.002907	chr7_47924777_47925902	555.0	0.000000	0.000000	0.997093	0.000000	C	G	CG	IISNP93 CG	NaN	AVBlank2-Nov-10-15	0.974221	0.997093	True	0.000187	-0.000187	Recipient Homo
AVBlank2-Nov-10-15	762.0	288.0	CYC10Nov2015Pool3	aIISNP112	IISNP112	chr7	130021488.0	G	C	2952.0	3045.0	0.492246	0.507754	5997.0	6006.0	9.0	0.001499	chr7_130020932_130022055	557.0	0.492246	0.506993	0.491508	0.491508	C	G	CG	IISNP112 CG	NaN	AVBlank2-Nov-10-15	0.739531	0.998501	True	0.000187	0.492059	Recipient Hetero
AVBlank2-Nov-10-15	763.0	288.0	CYC10Nov2015Pool3	aIISNP166	IISNP166	chr7	138740037.0	G	C	12231.0	15.0	0.998775	0.001225	12246.0	12246.0	0.0	0.000000	chr7_138739465_138740586	573.0	0.001225	0.001225	0.998775	0.001225	G	C	GC	IISNP166 GC	NaN	AVBlank2-Nov-10-15	1.507875	1.000000	True	0.000182	0.001043	Recipient Homo

46847 rows × 35 columns

# help(pd.DataFrame.iplot)

SNP_cov

	Genome_location	Ref_start_pos	Ref_end_pos	rsID	SNP_pos_in_ref	Ref	Alt	amp_length	SNP_pos	SNP_cov_end_bound	SNP_cov_type
SNP_ID
IISNP1	chr11_115206646_115207761	501	616	rs10488710	chr11_115206646_115207761:531	C	G	116	31	35	False
IISNP10	chr4_46329095_46330254	501	660	rs279844	chr4_46329095_46330254:561	A	T	160	61	79	False
IISNP100	chr19_10599851_10600965	501	615	rs1048290	chr19_10599851_10600965:592	G	C	115	92	34	False
IISNP101	chr17_33998221_33999330	501	610	rs1049379	chr17_33998221_33999330:582	G	C	110	82	29	True
IISNP102	chr1_154744236_154745348	501	613	rs1051614	chr1_154744236_154745348:572	C	G	113	72	32	True
IISNP103	chr2_118574685_118575803	501	619	rs1052637	chr2_118574685_118575803:531	C	G	119	31	38	False
IISNP104	chr1_236381266_236382387	501	622	rs1055851	chr1_236381266_236382387:560	G	C	122	60	41	True
IISNP105	chr20_24939035_24940159	501	625	rs1056033	chr20_24939035_24940159:556	G	C	125	56	44	True
IISNP106	chr5_145441622_145442735	501	614	rs1056149	chr5_145441622_145442735:582	G	C	114	82	33	True
IISNP107	chr11_17519170_17520279	501	610	rs1064074	chr11_17519170_17520279:573	C	G	110	73	29	True
IISNP108	chr2_85769181_85770292	501	612	rs1078004	chr2_85769181_85770292:531	C	G	112	31	31	False
IISNP109	chr11_11292148_11293259	501	612	rs10831567	chr11_11292148_11293259:553	G	C	112	53	31	True
IISNP11	chr4_169663057_169664186	501	630	rs6811238	chr4_169663057_169664186:559	T	G	130	59	49	True
IISNP110	chr10_129899187_129900315	501	629	rs11106	chr10_129899187_129900315:592	G	C	129	92	48	False
IISNP111	chr1_75096893_75098000	501	608	rs11210490	chr1_75096893_75098000:534	G	C	108	34	27	True
IISNP112	chr7_130020932_130022055	501	624	rs1126899	chr7_130020932_130022055:557	G	C	124	57	43	True
IISNP113	chr15_78632267_78633388	501	622	rs1127472	chr15_78632267_78633388:564	C	G	122	64	41	True
IISNP114	chr10_24872787_24873906	501	620	rs1127893	chr10_24872787_24873906:583	C	G	120	83	39	False
IISNP115	chr5_176862952_176864062	501	611	rs1130857	chr5_176862952_176864062:568	G	C	111	68	30	True
IISNP116	chr4_88415067_88416171	501	605	rs1049544	chr4_88415067_88416171:570	G	C	105	70	24	True
IISNP117	chr19_44302506_44303626	501	621	rs11547806	chr19_44302506_44303626:561	C	G	121	61	40	True
IISNP118	chr12_121416065_121417194	501	630	rs1169289	chr12_121416065_121417194:558	C	G	130	58	49	True
IISNP119	chr9_2717972_2719101	501	630	rs12237048	chr9_2717972_2719101:563	C	G	130	63	49	True
IISNP12	chr16_78016473_78017602	501	630	rs430046	chr16_78016473_78017602:579	C	T	130	79	49	True
IISNP120	chr4_129042633_129043755	501	623	rs12508837	chr4_129042633_129043755:572	C	G	123	72	42	True
IISNP121	chr10_5136059_5137186	501	628	rs12529	chr10_5136059_5137186:593	C	G	128	93	47	False
IISNP122	chr6_170861722_170862832	501	611	rs12717	chr6_170861722_170862832:579	G	C	111	79	30	True
IISNP123	chr5_161118544_161119671	501	628	rs13184586	chr5_161118544_161119671:582	C	G	128	82	47	True
IISNP124	chr9_129455060_129456167	501	608	rs13295990	chr9_129455060_129456167:528	G	C	108	28	27	True
IISNP125	chr13_25008849_25009978	501	630	rs13428	chr13_25008849_25009978:593	C	G	130	93	49	False
IISNP126	chr19_48620482_48621601	501	620	rs13436	chr19_48620482_48621601:555	C	G	120	55	39	True
IISNP127	chr11_57798787_57799916	501	630	rs1374570	chr11_57798787_57799916:585	G	C	130	85	49	False
IISNP128	chr3_16305112_16306238	501	627	rs14080	chr3_16305112_16306238:563	C	G	127	63	46	True
IISNP129	chr9_125315189_125316306	501	618	rs1411271	chr9_125315189_125316306:590	G	C	118	90	37	False
IISNP13	chr19_39559236_39560337	501	602	rs576261	chr19_39559236_39560337:572	A	C	102	72	21	True
IISNP130	chr19_618466_619585	501	620	rs14155	chr19_618466_619585:556	G	C	120	56	39	True
IISNP131	chr1_247751483_247752601	501	619	rs1151687	chr1_247751483_247752601:537	G	C	119	37	38	False
IISNP132	chr12_49255241_49256366	501	626	rs1565933	chr12_49255241_49256366:558	G	C	126	58	45	True
IISNP133	chr12_14656198_14657327	501	630	rs1600	chr12_14656198_14657327:571	G	C	130	71	49	True
IISNP134	chr6_38781300_38782411	501	612	rs1678690	chr6_38781300_38782411:567	C	G	112	67	31	True
IISNP135	chr2_29415814_29416943	501	630	rs1881421	chr2_29415814_29416943:553	G	C	130	53	49	True
IISNP136	chr19_44981323_44982437	501	615	rs1897820	chr19_44981323_44982437:561	C	G	115	61	34	True
IISNP137	chr15_40655304_40656417	501	614	rs1898882	chr15_40655304_40656417:570	G	C	114	70	33	True
IISNP138	chr21_40669882_40670990	501	609	rs2056844	chr21_40669882_40670990:579	G	C	109	79	28	True
IISNP139	chr8_23058791_23059898	501	608	rs20575	chr8_23058791_23059898:534	C	G	108	34	27	True
IISNP14	chr8_28410486_28411610	501	625	rs10092491	chr8_28410486_28411610:587	T	C	125	87	44	False
IISNP140	chr21_47849924_47851051	501	628	rs2070426	chr21_47849924_47851051:561	G	C	128	61	47	True
IISNP141	chr6_33272320_33273427	501	608	rs2071888	chr6_33272320_33273427:536	G	C	108	36	27	True
IISNP142	chr12_31249317_31250444	501	628	rs2075322	chr12_31249317_31250444:545	C	G	128	45	47	False
IISNP143	chr6_52617161_52618275	501	615	rs2180314	chr6_52617161_52618275:571	C	G	115	71	34	True
IISNP144	chr6_41773010_41774136	501	627	rs2185798	chr6_41773010_41774136:567	G	C	127	67	46	True
IISNP145	chr12_5020815_5021938	501	624	rs2227910	chr12_5020815_5021938:534	G	C	124	34	43	False
IISNP146	chr9_137711436_137712561	501	626	rs2228560	chr9_137711436_137712561:562	G	C	126	62	45	True
IISNP147	chr2_215644872_215645995	501	624	rs2229571	chr2_215644872_215645995:593	C	G	124	93	43	False
IISNP148	chr2_75113219_75114341	501	623	rs2229627	chr2_75113219_75114341:571	C	G	123	71	42	True
IISNP149	chr3_129285829_129286957	501	629	rs2245285	chr3_129285829_129286957:585	G	C	129	85	48	False
IISNP15	chr16_5868144_5869263	501	620	rs2342747	chr16_5868144_5869263:557	A	G	120	57	39	True
IISNP150	chr21_44293171_44294278	501	608	rs2248490	chr21_44293171_44294278:574	C	G	108	74	27	True
IISNP151	chr7_150877678_150878790	501	613	rs2253592	chr7_150877678_150878790:583	C	G	113	83	32	False
IISNP152	chr1_22216012_22217133	501	622	rs2254357	chr1_22216012_22217133:593	C	G	122	93	41	False
IISNP153	chr14_58563143_58564270	501	628	rs2273442	chr14_58563143_58564270:552	G	C	128	52	47	True
IISNP154	chr10_99438974_99440086	501	613	rs2275047	chr10_99438974_99440086:568	G	C	113	68	32	True
IISNP155	chr12_130940594_130941723	501	630	rs2277361	chr12_130940594_130941723:557	G	C	130	57	49	True
IISNP156	chr12_56827164_56828284	501	621	rs2279665	chr12_56827164_56828284:531	C	G	121	31	40	False
IISNP157	chr9_8388794_8389902	501	609	rs2279776	chr9_8388794_8389902:571	C	G	109	71	28	True
IISNP158	chr22_37963741_37964868	501	628	rs2281098	chr22_37963741_37964868:559	C	G	128	59	47	True
IISNP159	chr19_10083723_10084832	501	610	rs2287813	chr19_10083723_10084832:570	C	G	110	70	29	True
IISNP16	chr3_32417091_32418199	501	609	rs4364205	chr3_32417091_32418199:554	T	G	109	54	28	True
IISNP160	chr17_76448943_76450062	501	620	rs2289751	chr17_76448943_76450062:563	G	C	120	63	39	True
IISNP161	chr15_22960301_22961425	501	625	rs2289818	chr15_22960301_22961425:568	G	C	125	68	44	True
IISNP162	chr1_87100813_87101939	501	627	rs2292830	chr1_87100813_87101939:563	C	G	127	63	46	True
IISNP163	chr8_27667377_27668505	501	629	rs2294092	chr8_27667377_27668505:593	C	G	129	93	48	False
IISNP164	chr6_126277677_126278784	501	608	rs2295005	chr6_126277677_126278784:554	G	C	108	54	27	True
IISNP165	chr10_90342263_90343376	501	614	rs2296545	chr10_90342263_90343376:575	C	G	114	75	33	True
IISNP166	chr7_138739465_138740586	501	622	rs2297236	chr7_138739465_138740586:573	G	C	122	73	41	True
IISNP167	chr7_156761669_156762794	501	626	rs2302443	chr7_156761669_156762794:556	G	C	126	56	45	True
IISNP168	chr16_88767192_88768321	501	630	rs2306049	chr16_88767192_88768321:578	G	C	130	78	49	True
IISNP169	chr22_45821381_45822501	501	621	rs1022478	chr22_45821381_45822501:576	C	G	121	76	40	True
IISNP17	chr20_15124404_15125523	501	620	rs445251	chr20_15124404_15125523:530	G	C	120	30	39	False
IISNP170	chr17_15216858_15217965	501	608	rs230898	chr17_15216858_15217965:580	C	G	108	80	27	True
IISNP171	chr19_36277889_36279010	501	622	rs231235	chr19_36277889_36279010:582	C	G	122	82	41	True
IISNP172	chr6_150209159_150210278	501	620	rs2342767	chr6_150209159_150210278:559	C	G	120	59	39	True
IISNP173	chr20_5903313_5904421	501	609	rs236152	chr20_5903313_5904421:536	C	G	109	36	28	True
IISNP174	chr3_48460757_48461883	501	627	rs2362450	chr3_48460757_48461883:557	C	G	127	57	46	True
IISNP175	chr2_27324182_27325292	501	611	rs2384571	chr2_27324182_27325292:543	G	C	111	43	30	True
IISNP176	chr5_75932415_75933522	501	608	rs2455230	chr5_75932415_75933522:551	G	C	108	51	27	True
IISNP177	chr5_140531170_140532269	501	600	rs246703	chr5_140531170_140532269:577	C	G	100	77	19	True
IISNP178	chr10_25700758_25701869	501	612	rs2480345	chr10_25700758_25701869:584	C	G	112	84	31	False
IISNP179	chr5_78339702_78340831	501	630	rs248385	chr5_78339702_78340831:556	C	G	130	56	49	True
IISNP18	chr9_27985366_27986466	501	601	rs7041158	chr9_27985366_27986466:573	C	T	101	73	20	True
IISNP180	chr1_62516111_62517226	501	616	rs2498982	chr1_62516111_62517226:573	G	C	116	73	35	True
IISNP181	chr10_38344113_38345242	501	630	rs2505232	chr10_38344113_38345242:588	C	G	130	88	49	False
IISNP182	chr11_94230690_94231811	501	622	rs2509943	chr11_94230690_94231811:568	C	G	122	68	41	True
IISNP183	chr16_4309882_4311001	501	620	rs251732	chr16_4309882_4311001:587	C	G	120	87	39	False
IISNP184	chr9_136536239_136537346	501	608	rs2519123	chr9_136536239_136537346:555	C	G	108	55	27	True
IISNP185	chr7_25194102_25195226	501	625	rs2523072	chr7_25194102_25195226:564	G	C	125	64	44	True
IISNP186	chr18_44560549_44561667	501	619	rs2571028	chr18_44560549_44561667:552	C	G	119	52	38	True
IISNP187	chr11_4566780_4567909	501	630	rs2657167	chr11_4566780_4567909:556	C	G	130	56	49	True
IISNP188	chr8_143694218_143695347	501	630	rs28686812	chr8_143694218_143695347:558	G	C	130	58	49	True
IISNP189	chr10_126714134_126715248	501	615	rs2946994	chr10_126714134_126715248:581	G	C	115	81	34	True
IISNP19	chr1_233447873_233448982	501	610	rs1294331	chr1_233447873_233448982:541	C	T	110	41	29	True
IISNP190	chr19_53343564_53344688	501	625	rs10419826	chr19_53343564_53344688:555	C	G	125	55	44	True
IISNP191	chr11_125763182_125764289	501	608	rs3088241	chr11_125763182_125764289:565	C	G	108	65	27	True
IISNP192	chr17_35901690_35902813	501	624	rs3110623	chr17_35901690_35902813:536	C	G	124	36	43	False
IISNP193	chr7_12268849_12269978	501	630	rs3173615	chr7_12268849_12269978:569	C	G	130	69	49	True
IISNP194	chr16_11773071_11774198	501	628	rs3190321	chr16_11773071_11774198:592	C	G	128	92	47	False
IISNP195	chr22_31490725_31491854	501	630	rs3205187	chr22_31490725_31491854:571	G	C	130	71	49	True
IISNP196	chr4_77660183_77661297	501	615	rs344141	chr4_77660183_77661297:549	C	G	115	49	34	True
IISNP197	chr4_186379303_186380429	501	627	rs35596415	chr4_186379303_186380429:597	G	C	127	97	46	False
IISNP198	chr22_22868645_22869769	501	625	rs362124	chr22_22868645_22869769:565	C	G	125	65	44	True
IISNP199	chr19_54663644_54664769	501	626	rs36657	chr19_54663644_54664769:566	G	C	126	66	45	True
IISNP2	chr3_113804421_113805528	501	608	rs1872575	chr3_113804421_113805528:559	G	A	108	59	27	True
IISNP20	chr5_17374335_17375441	501	607	rs159606	chr5_17374335_17375441:564	A	G	107	64	26	True
IISNP200	chr2_219601952_219603075	501	624	rs3731877	chr2_219601952_219603075:548	G	C	124	48	43	True
IISNP201	chr2_220378975_220380095	501	621	rs3731909	chr2_220378975_220380095:586	C	G	121	86	40	False
IISNP202	chr6_76659989_76661118	501	630	rs3734311	chr6_76659989_76661118:563	G	C	130	63	49	True
IISNP203	chr7_20180151_20181280	501	630	rs3735615	chr7_20180151_20181280:567	C	G	130	67	49	True
IISNP204	chr10_128018457_128019577	501	621	rs3740199	chr10_128018457_128019577:569	C	G	121	69	40	True
IISNP205	chr2_101009515_101010629	501	615	rs3748930	chr2_101009515_101010629:568	G	C	115	68	34	True
IISNP206	chr11_8946706_8947820	501	615	rs3751066	chr11_8946706_8947820:578	G	C	115	78	34	True
...	...	...	...	...	...	...	...	...	...	...	...
IISNP245	chr11_117163245_117164370	501	626	rs638405	chr11_117163245_117164370:580	C	G	126	80	45	True
IISNP246	chr6_56482232_56483352	501	621	rs6459166	chr6_56482232_56483352:570	C	G	121	70	40	True
IISNP247	chr6_138412785_138413907	501	623	rs648802	chr6_138412785_138413907:549	G	C	123	49	42	True
IISNP248	chr19_57837471_57838600	501	630	rs6510057	chr19_57837471_57838600:548	C	G	130	48	49	False
IISNP249	chr3_186917177_186918300	501	624	rs6764714	chr3_186917177_186918300:575	C	G	124	75	43	True
IISNP25	chr11_5098168_5099267	501	600	rs10768550	chr11_5098168_5099267:547	C	T	100	47	19	True
IISNP250	chr3_14755064_14756187	501	624	rs6790129	chr3_14755064_14756187:554	C	G	124	54	43	True
IISNP251	chr3_45052203_45053327	501	625	rs6794	chr3_45052203_45053327:573	G	C	125	73	44	True
IISNP252	chr3_183777454_183778574	501	621	rs6807362	chr3_183777454_183778574:557	G	C	121	57	40	True
IISNP253	chr4_139139958_139141085	501	628	rs6838248	chr4_139139958_139141085:537	G	C	128	37	47	False
IISNP254	chr7_141672808_141673933	501	626	rs713598	chr7_141672808_141673933:538	C	G	126	38	45	False
IISNP255	chr14_50798535_50799661	501	627	rs7161563	chr14_50798535_50799661:592	G	C	127	92	46	False
IISNP256	chr10_114052989_114054096	501	608	rs726009	chr10_114052989_114054096:558	C	G	108	58	27	True
IISNP257	chr1_214836531_214837646	501	616	rs7289	chr1_214836531_214837646:580	C	G	116	80	35	True
IISNP258	chr12_14018199_14019328	501	630	rs7301328	chr12_14018199_14019328:579	G	C	130	79	49	True
IISNP259	chr13_73348771_73349897	501	627	rs7332388	chr13_73348771_73349897:589	G	C	127	89	46	False
IISNP26	chr12_130761129_130762238	501	610	rs10773760	chr12_130761129_130762238:568	A	G	110	68	29	True
IISNP260	chr22_51063487_51064595	501	609	rs743616	chr22_51063487_51064595:553	G	C	109	53	28	True
IISNP261	chr6_36286765_36287879	501	615	rs743852	chr6_36286765_36287879:548	G	C	115	48	34	True
IISNP262	chr17_71232306_71233435	501	630	rs745142	chr17_71232306_71233435:576	G	C	130	76	49	True
IISNP263	chr6_46107197_46108304	501	608	rs7451713	chr6_46107197_46108304:556	C	G	108	56	27	True
IISNP264	chr1_205553518_205554618	501	601	rs7526132	chr1_205553518_205554618:568	G	C	101	68	20	True
IISNP265	chr1_47799106_47800221	501	616	rs7543016	chr1_47799106_47800221:534	G	C	116	34	35	False
IISNP266	chr2_28824241_28825363	501	623	rs7601771	chr2_28824241_28825363:553	C	G	123	53	42	True
IISNP267	chr7_4026399_4027521	501	623	rs7785899	chr7_4026399_4027521:546	C	G	123	46	42	True
IISNP268	chr1_111956532_111957661	501	630	rs7825	chr1_111956532_111957661:566	C	G	130	66	49	True
IISNP269	chr14_103439920_103441032	501	613	rs8009219	chr14_103439920_103441032:554	G	C	113	54	32	True
IISNP27	chr9_137416746_137417845	501	600	rs10776839	chr9_137416746_137417845:563	G	T	100	63	19	True
IISNP270	chr15_94883526_94884639	501	614	rs8025851	chr15_94883526_94884639:583	G	C	114	83	33	False
IISNP271	chr16_16278312_16279424	501	613	rs8058696	chr16_16278312_16279424:558	G	C	113	58	32	True
IISNP272	chr17_48625341_48626470	501	630	rs8076632	chr17_48625341_48626470:588	C	G	130	88	49	False
IISNP273	chr16_8952508_8953628	501	621	rs8097	chr16_8952508_8953628:574	C	G	121	74	40	True
IISNP274	chr19_18377056_18378185	501	630	rs8103906	chr19_18377056_18378185:592	G	C	130	92	49	False
IISNP275	chr1_17659939_17661046	501	608	rs874881	chr1_17659939_17661046:561	G	C	108	61	27	True
IISNP276	chr12_88440104_88441233	501	630	rs9262	chr12_88440104_88441233:573	G	C	130	73	49	True
IISNP277	chr3_118866464_118867580	501	617	rs9289122	chr3_118866464_118867580:584	C	G	117	84	36	False
IISNP278	chr17_42475406_42476535	501	630	rs936019	chr17_42475406_42476535:578	G	C	130	78	49	True
IISNP279	chr6_26508757_26509875	501	619	rs9393728	chr6_26508757_26509875:574	C	G	119	74	38	True
IISNP28	chr2_10085153_10086253	501	601	rs1109037	chr2_10085153_10086253:570	G	A	101	70	20	True
IISNP280	chr11_60700573_60701681	501	609	rs9513	chr11_60700573_60701681:564	C	G	109	64	28	True
IISNP281	chr19_56422500_56423625	501	626	rs977070	chr19_56422500_56423625:575	C	G	126	75	45	True
IISNP282	chr3_112642035_112643149	501	615	rs9865242	chr3_112642035_112643149:534	C	G	115	34	34	False
IISNP29	chr20_16240863_16241962	501	600	rs12480506	chr20_16240863_16241962:554	A	G	100	54	19	True
IISNP3	chr1_160786113_160787219	501	607	rs560681	chr1_160786113_160787219:558	A	G	107	58	26	True
IISNP30	chr2_182412681_182413789	501	609	rs12997453	chr2_182412681_182413789:579	A	G	109	79	28	True
IISNP31	chr4_76425332_76426441	501	610	rs13134862	chr4_76425332_76426441:565	G	A	110	65	29	True
IISNP32	chr6_12059397_12060504	501	608	rs13218440	chr6_12059397_12060504:558	G	A	108	58	27	True
IISNP33	chr6_94536699_94537824	501	626	rs1336071	chr6_94536699_94537824:557	T	C	126	57	45	True
IISNP34	chr6_123894407_123895512	501	606	rs1358856	chr6_123894407_123895512:572	C	A	106	72	25	True
IISNP35	chr10_97172060_97173166	501	607	rs1410059	chr10_97172060_97173166:536	T	C	107	36	26	True
IISNP36	chr6_120560128_120561231	501	604	rs1478829	chr6_120560128_120561231:567	T	A	104	67	23	True
IISNP37	chr1_4366758_4367875	501	618	rs1490413	chr1_4366758_4367875:566	G	A	118	66	37	True
IISNP38	chr11_5708471_5709577	501	607	rs1498553	chr11_5708471_5709577:558	C	T	107	58	26	True
IISNP39	chr20_51295583_51296712	501	630	rs1523537	chr20_51295583_51296712:580	T	C	130	80	49	True
IISNP4	chr8_144656177_144657285	501	609	rs4606077	chr8_144656177_144657285:578	T	C	109	78	28	True
IISNP40	chr4_157489335_157490443	501	609	rs1554472	chr4_157489335_157490443:572	G	A	109	72	28	True
IISNP41	chr18_55225209_55226308	501	600	rs1736442	chr18_55225209_55226308:569	T	C	100	69	19	True
IISNP42	chr15_39312848_39313954	501	607	rs1821380	chr15_39312848_39313954:555	C	G	107	55	26	True
IISNP43	chr4_10968504_10969612	501	609	rs2046361	chr4_10968504_10969612:556	T	A	109	56	28	True
IISNP44	chr22_23801605_23802709	501	605	rs2073383	chr22_23801605_23802709:567	T	C	105	67	24	True
IISNP45	chr6_152697130_152698240	501	611	rs214955	chr6_152697130_152698240:577	C	T	111	77	30	True
IISNP46	chr17_41286243_41287360	501	618	rs2175957	chr17_41286243_41287360:580	T	G	118	80	37	True
IISNP47	chr12_6908891_6910000	501	610	rs2255301	chr12_6908891_6910000:552	T	C	110	52	29	True
IISNP48	chr12_6945352_6946456	501	605	rs2269355	chr12_6945352_6946456:563	C	G	105	63	24	True
IISNP49	chr9_14746585_14747714	501	630	rs2270529	chr9_14746585_14747714:549	T	C	130	49	49	False
IISNP5	chr12_40862467_40863585	501	619	rs2920816	chr12_40862467_40863585:586	A	G	119	86	38	False
IISNP50	chr6_148760890_148761999	501	610	rs2272998	chr6_148760890_148761999:567	G	C	110	67	29	True
IISNP51	chr17_80525564_80526669	501	606	rs2291395	chr17_80525564_80526669:576	A	G	106	76	25	True
IISNP52	chr17_80765219_80766321	501	603	rs2292972	chr17_80765219_80766321:570	T	C	103	70	22	True
IISNP53	chr3_110300565_110301664	501	600	rs2399332	chr3_110300565_110301664:562	T	G	100	62	19	True
IISNP54	chr6_127462805_127463913	501	609	rs2503107	chr6_127462805_127463913:572	C	A	109	72	28	True
IISNP55	chr20_23016527_23017635	501	609	rs2567608	chr20_23016527_23017635:556	T	C	109	56	28	True
IISNP56	chr6_55155134_55156239	501	606	rs2811231	chr6_55155134_55156239:571	C	A	106	71	25	True
IISNP57	chr21_33582165_33583274	501	610	rs2833736	chr21_33582165_33583274:558	G	A	110	58	29	True
IISNP58	chr5_169735367_169736476	501	610	rs315791	chr5_169735367_169736476:554	A	C	110	54	29	True
IISNP59	chr7_137029274_137030380	501	607	rs321198	chr7_137029274_137030380:565	T	C	107	65	26	True
IISNP6	chr7_4309792_4310920	501	629	rs6955448	chr7_4309792_4310920:574	C	T	129	74	48	True
IISNP60	chr5_178690152_178691259	501	608	rs338882	chr5_178690152_178691259:574	G	A	108	74	27	True
IISNP61	chr17_80739299_80740406	501	608	rs3744163	chr17_80739299_80740406:561	G	C	108	61	27	True
IISNP62	chr10_17192789_17193898	501	610	rs3780962	chr10_17192789_17193898:558	A	G	110	58	29	True
IISNP63	chr8_136838646_136839775	501	630	rs4288409	chr8_136838646_136839775:584	A	C	130	84	49	False
IISNP64	chr14_104768569_104769678	501	610	rs4530059	chr14_104768569_104769678:581	G	A	110	81	29	True
IISNP65	chr21_28022802_28023902	501	601	rs464663	chr21_28022802_28023902:569	T	C	101	69	20	True
IISNP66	chr17_80531082_80532207	501	626	rs4789798	chr17_80531082_80532207:562	C	G	126	62	45	True
IISNP67	chr17_6810940_6812066	501	627	rs4796362	chr17_6810940_6812066:590	G	A	127	90	46	False
IISNP68	chr1_105717077_105718184	501	608	rs4847034	chr1_105717077_105718184:555	A	G	108	55	27	True
IISNP69	chr18_47370442_47371541	501	600	rs521861	chr18_47370442_47371541:573	C	G	100	73	19	True
IISNP7	chr13_100037637_100038761	501	625	rs1058083	chr13_100037637_100038761:597	A	G	125	97	44	False
IISNP70	chr22_19920061_19921192	501	632	rs5746846	chr22_19920061_19921192:586	C	G	132	86	51	False
IISNP71	chr11_122195414_122196543	501	630	rs590162	chr11_122195414_122196543:576	C	T	130	76	49	True
IISNP72	chr3_193206814_193207921	501	608	rs6444724	chr3_193206814_193207921:567	T	C	108	67	27	True
IISNP73	chr11_105912429_105913529	501	601	rs6591147	chr11_105912429_105913529:556	T	C	101	56	20	True
IISNP74	chr17_80715140_80716246	501	607	rs689512	chr17_80715140_80716246:563	G	C	107	63	26	True
IISNP75	chr16_7519685_7520809	501	625	rs7205345	chr16_7519685_7520809:570	C	G	125	70	44	True
IISNP76	chr14_53216148_53217276	501	629	rs722290	chr14_53216148_53217276:576	G	C	129	76	48	True
IISNP77	chr18_22738427_22739556	501	630	rs7229946	chr18_22738427_22739556:575	G	A	130	75	49	True
IISNP78	chr10_118506324_118507433	501	610	rs740598	chr10_118506324_118507433:576	G	A	110	76	29	True
IISNP79	chr1_14154833_14155962	501	630	rs7520386	chr1_14154833_14155962:570	G	A	130	70	49	True
IISNP8	chr21_43606463_43607573	501	611	rs221956	chr21_43606463_43607573:535	T	C	111	35	30	True
IISNP80	chr5_159487382_159488507	501	626	rs7704770	chr5_159487382_159488507:572	G	A	126	72	45	True
IISNP81	chr17_41341424_41342523	501	600	rs8070085	chr17_41341424_41342523:561	A	G	100	61	19	True
IISNP82	chr17_80461344_80462465	501	622	rs8078417	chr17_80461344_80462465:592	C	T	122	92	41	False
IISNP83	chr1_239881353_239882471	501	619	rs891700	chr1_239881353_239882471:574	A	G	119	74	38	True
IISNP84	chr11_11095660_11096769	501	610	rs901398	chr11_11095660_11096769:562	C	T	110	62	29	True
IISNP85	chr13_84456181_84457286	501	606	rs9546538	chr13_84456181_84457286:555	T	C	106	55	25	True
IISNP86	chr22_19919790_19920889	501	600	rs9606186	chr22_19919790_19920889:570	C	G	100	70	19	True
IISNP87	chr18_29310484_29311587	501	604	rs985492	chr18_29310484_29311587:551	G	A	104	51	23	True
IISNP88	chr3_59487752_59488863	501	612	rs9866013	chr3_59487752_59488863:589	T	C	112	89	31	False
IISNP89	chr22_33558944_33560052	501	609	rs987640	chr22_33558944_33560052:565	T	A	109	65	28	True
IISNP9	chr5_136632784_136633892	501	609	rs13182883	chr5_136632784_136633892:555	G	A	109	55	28	True
IISNP90	chr17_2918812_2919921	501	610	rs9905977	chr17_2918812_2919921:582	A	G	110	82	29	True
IISNP91	chr2_124108634_124109748	501	615	rs993934	chr2_124108634_124109748:580	A	G	115	80	34	True
IISNP92	chr18_9749309_9750416	501	608	rs9951171	chr18_9749309_9750416:571	G	A	108	71	27	True
IISNP93	chr7_47924777_47925902	501	626	rs10274334	chr7_47924777_47925902:555	C	G	126	55	45	True
IISNP94	chr19_57085220_57086327	501	608	rs10421285	chr19_57085220_57086327:550	G	C	108	50	27	True
IISNP95	chr19_41938759_41939869	501	611	rs1043413	chr19_41938759_41939869:539	C	G	111	39	30	True
IISNP96	chr1_19447280_19448406	501	627	rs1044010	chr1_19447280_19448406:564	C	G	127	64	46	True
IISNP97	chr8_142203762_142204884	501	623	rs1045248	chr8_142203762_142204884:565	C	G	123	65	42	True
IISNP98	chr14_31354504_31355624	501	621	rs1045644	chr14_31354504_31355624:593	C	G	121	93	40	False
IISNP99	chr11_58318053_58319181	501	629	rs1047979	chr11_58318053_58319181:567	C	G	129	67	48	True

282 rows × 11 columns

namedtuple()

---------------------------------------------------------------------------
NameError                                 Traceback (most recent call last)
<ipython-input-61-726b1c1dd7f6> in <module>()
----> 1 namedtuple()

NameError: name 'namedtuple' is not defined

snp_annots = defaultdict(namedtuple)

df_bySNP.groupby('SNP_NAME').ALL_READS.mean().sort_values()[:20].iplot(kind='barh',)# annotations=snp_annots)#, figsize=(10,16))#, rot=30)

df_all_AV_blanks.PCT_DD_CFDNA.plot(kind='hist', ec='k', lw=1.5, fc='w', bins=20, label=str(df_all_AV_blanks.PCT_DD_CFDNA.describe()), legend='right')
plt.gca().legend(loc='best',
               bbox_to_anchor=(1, 1))
sns.despine(offset=10, trim=True)
sns.set_style('ticks')

df_all_AV_blanks.QC_RESULT.describe()

# .PCT_DD_CFDNA.plot(kind='hist', ec='k', lw=1.5, fc='w', bins=20, label=str(df_all_AV_blanks.PCT_DD_CFDNA.describe()), legend='right')
# plt.gca().legend(loc='best',
#                bbox_to_anchor=(1, 1))
# sns.despine(offset=10, trim=True)
# sns.set_style('ticks')

count      180
unique       1
top       PASS
freq       180
Name: QC_RESULT, dtype: object

return_numeric(df_all).hist(fc='k', ec='r', lw=1.0, bins=30, alpha=0.5, figsize=(24,8), layout=(2,5), xrot=30)# sharey=True, )
sns.despine(offset=10)
sns.set_style('ticks')

return_numeric(df_all).corr()

	CLUSTER_DENSITY	ID	PCT_DD_CFDNA	READS_PASS_QC	SNPS_PASS_QC	TOTAL_READS
CLUSTER_DENSITY	1.000000	-0.438208	0.035895	0.111602	-0.018882	0.112193
ID	-0.438208	1.000000	-0.169445	-0.052886	0.023769	-0.053741
PCT_DD_CFDNA	0.035895	-0.169445	1.000000	-0.059137	-0.448501	-0.058069
READS_PASS_QC	0.111602	-0.052886	-0.059137	1.000000	0.618406	0.999925
SNPS_PASS_QC	-0.018882	0.023769	-0.448501	0.618406	1.000000	0.614255
TOTAL_READS	0.112193	-0.053741	-0.058069	0.999925	0.614255	1.000000

df_all.PCT_DD_CFDNA.clip_upper(0.01).mean()

0.00020777777777777792

# Gather via input list DART_patient_IDs linked by unique Sample_Name 
# --> insert into existing df_all_DART to replace nan's in current PATIENT_ID col
# df_DART_PIDs = pd.read_csv(DART_lock2_PIDs)
# df_DART_PIDs

# ## DART STUDY
# DART_PIDs = {}
# DART_PID_to_EID = defaultdict(list)
# # for i,(eid,pid) in enumerate(zip(df_all_DART.index, df_all_DART.PATIENT_STUDY_ID)):
# for pid,eid in zip(df_DART_PIDs.SITE_SUBJECT_ID, df_DART_PIDs.SAMPLE_NAME):
#     DART_PIDs[eid] = pid
#     DART_PID_to_EID[pid].append(eid)
# # DART_PIDs.items()

# df_DART_bySNP.describe(include='all')
# df_QC_Eval_bySNP.describe(include='all')
# print(sorted(df_DART_bySNP.SNP_NAME.unique()))
# len(sorted(df_DART_bySNP.SNP_NAME.unique()))

# help(pd.DataFrame.set_index)

# help(pd.DataFrame.plot)

df_bySNP.loc[df_bySNP.SNP_NAME=='IISNP145',:]

	ID	RUN_ID	EXPERIMENT_NAME	AMPLICON_NAME	SNP_NAME	CHROMOSOME	POSITION	REF	ALT	REF_COUNT	ALT_COUNT	REF_FREQ	ALT_FREQ	REF_ALT_READS	ALL_READS	ERR_COUNT	ERR_FREQ_TOTAL	CHROMOSOME_MOCK	POSITION_MOCK	DONORFREQUENCY	ALT_FREQ_TOTAL	REF_FREQ_TOTAL	DONORFREQUENCYTOTAL	RECIPIENTALLELE	DONORALLELE	SUBSTITUTION	SNPDIRECTION	SAMPLE_PROJECT	UNIQUEID	RELATIVE_COVERAGE	REFALTFRACTION	SNPPASSQC	BACKGROUND	ADJUSTEDFREQUENCY	RECIPIENTGENOCALL	ERR_FREQ_FIXED
SAMPLE_NAME
Streck0008-Oct-22-15	2141.0	248.0	PS20151022P1	aIISNP145	IISNP145	chr12	5021348.0	G	C	3900.0	3833.0	0.504332	0.495668	7733.0	8128.0	395.0	0.048597	chr12_5020815_5021938	534.0	0.495668	0.47158	0.479823	0.47158	G	C	GC	IISNP145 GC	NaN	Streck0008-Oct-22-15	1.550679	0.951403	True	0.000174	0.495494	Recipient Hetero	0.544091

# !pip install cufflinks

df_bySNP.UNIQUEID.describe()

count                    46847
unique                     180
top       HRZ-6-9-60-Oct-7-15 
freq                       262
Name: UNIQUEID, dtype: object

SNP error & background stats

# ax = df_bySNP.ERR_FREQ_TOTAL.groupby(df_bySNP.SNP_NAME).mean().nlargest(20)#.plot('barh', figsize=(10,25), )#, grid=True, fc='w', alpha=0.75, ec='b', lw=5)
sns.set_style('ticks')
df_bySNP['ERR_FREQ_FIXED'] = df_bySNP['ERR_FREQ_TOTAL'] + df_bySNP['DONORFREQUENCY']
df_bySNP.ERR_FREQ_FIXED.describe()

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/ipykernel_launcher.py:3: SettingWithCopyWarning:


A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead

See the caveats in the documentation: http://pandas.pydata.org/pandas-docs/stable/indexing.html#indexing-view-versus-copy

count    493905.000000
mean          0.211878
std           0.223675
min           0.000000
25%           0.001368
50%           0.048187
75%           0.465293
max           1.493711
Name: ERR_FREQ_FIXED, dtype: float64

SNP_cov['SNP_NAME'] = SNP_cov.index

# df_bySNP_numeric.sort_index(inplace=True, axis=1)
AV_SNP_stats = df_bySNP.groupby(df_bySNP['SNP_NAME']).describe().unstack()

missing_snps = SNP_cov[~SNP_cov.index.isin(AV_SNP_stats.index)]

for ghost_snp in missing_snps.index:
    AV_SNP_stats.loc[ghost_snp,:] = np.nan

AV_SNP_stats.index

Index(['IISNP1', 'IISNP10', 'IISNP100', 'IISNP101', 'IISNP102', 'IISNP103', 'IISNP104', 'IISNP105',
       'IISNP106', 'IISNP107',
       ...
       'IISNP220', 'IISNP223', 'IISNP240', 'IISNP280', 'IISNP33', 'IISNP37', 'IISNP44', 'IISNP5',
       'IISNP61', 'IISNP77'],
      dtype='object', name='SNP_NAME', length=282)

AV_SNP_stats.to_csv('AV_N=1927_stats_170412.csv')

missing_snps

	Genome_location	Ref_start_pos	Ref_end_pos	rsID	SNP_pos_in_ref	Ref	Alt	amp_length	SNP_pos	SNP_cov_end_bound	SNP_cov_type	SNP_NAME
SNP_ID
IISNP118	chr12_121416065_121417194	501	630	rs1169289	chr12_121416065_121417194:558	C	G	130	58	49	True	IISNP118
IISNP141	chr6_33272320_33273427	501	608	rs2071888	chr6_33272320_33273427:536	G	C	108	36	27	True	IISNP141
IISNP153	chr14_58563143_58564270	501	628	rs2273442	chr14_58563143_58564270:552	G	C	128	52	47	True	IISNP153
IISNP155	chr12_130940594_130941723	501	630	rs2277361	chr12_130940594_130941723:557	G	C	130	57	49	True	IISNP155
IISNP18	chr9_27985366_27986466	501	601	rs7041158	chr9_27985366_27986466:573	C	T	101	73	20	True	IISNP18
IISNP183	chr16_4309882_4311001	501	620	rs251732	chr16_4309882_4311001:587	C	G	120	87	39	False	IISNP183
IISNP201	chr2_220378975_220380095	501	621	rs3731909	chr2_220378975_220380095:586	C	G	121	86	40	False	IISNP201
IISNP220	chr5_113697957_113699073	501	617	rs40179	chr5_113697957_113699073:588	G	C	117	88	36	False	IISNP220
IISNP223	chr2_26698552_26699653	501	602	rs4335905	chr2_26698552_26699653:575	C	G	102	75	21	True	IISNP223
IISNP240	chr11_85436305_85437424	501	620	rs597480	chr11_85436305_85437424:564	G	C	120	64	39	True	IISNP240
IISNP280	chr11_60700573_60701681	501	609	rs9513	chr11_60700573_60701681:564	C	G	109	64	28	True	IISNP280
IISNP33	chr6_94536699_94537824	501	626	rs1336071	chr6_94536699_94537824:557	T	C	126	57	45	True	IISNP33
IISNP37	chr1_4366758_4367875	501	618	rs1490413	chr1_4366758_4367875:566	G	A	118	66	37	True	IISNP37
IISNP44	chr22_23801605_23802709	501	605	rs2073383	chr22_23801605_23802709:567	T	C	105	67	24	True	IISNP44
IISNP5	chr12_40862467_40863585	501	619	rs2920816	chr12_40862467_40863585:586	A	G	119	86	38	False	IISNP5
IISNP61	chr17_80739299_80740406	501	608	rs3744163	chr17_80739299_80740406:561	G	C	108	61	27	True	IISNP61
IISNP77	chr18_22738427_22739556	501	630	rs7229946	chr18_22738427_22739556:575	G	A	130	75	49	True	IISNP77

high = df_bySNP.ERR_FREQ_FIXED.groupby(df_bySNP.SNP_NAME).mean().nlargest(50)#.plot('barh', figsize=(10,25), )
high_snps = df_bySNP[df_bySNP.SNP_NAME.isin(high.index)]

high_snps_stats = high_snps.ERR_FREQ_FIXED.groupby(high_snps.SNP_NAME).describe().unstack()#.plot('barh', figsize=(8,30))
# high_snps_stats.drop('count', axis=1).sort_values(by='mean').iplot(by='index', kind='bar', figsize=(25,10), grid=True, logy=True,)
high_snps_stats.loc[:,['max', 'min', 'mean', '25%', '50%', '75%', 'std']].sort_values(by='50%').iplot(
    kind='bar', title="AV Blanks - Error frequency stats", theme='ggplot', logy=False, orientation='horizontal', sortbars=True,
    )#, figsize=(25,10), grid=True, logy=True,)

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/cufflinks/plotlytools.py:123: FutureWarning:

sort is deprecated, use sort_values(inplace=True) for INPLACE sorting

df_snp_stats = df_bySNP.groupby('SNP_NAME').describe().unstack()

# df_all.sort_values(by='RUN_DATE',inplace=True)
# df_all.reset_index(inplace=True)
# df_all.loc[:,['RUN_DATE','RUN_NAME','SAMPLENAME']]

# df_bySNP_numeric = df_bySNP.select_dtypes(['float64'])#.columns
# df_bySNP_numeric = df_bySNP_numeric.loc[:,['REF_COUNT', 'ALT_COUNT', 'REF_FREQ', 'ALT_FREQ', 'REF_ALT_READS', 'ALL_READS', 'ERR_COUNT', 'ERR_FREQ_TOTAL', 'DONORFREQUENCY', 'ALT_FREQ_TOTAL', 'REF_FREQ_TOTAL', 'DONORFREQUENCYTOTAL', 'RELATIVE_COVERAGE', 'REFALTFRACTION', 'BACKGROUND', 'ADJUSTEDFREQUENCY', 'ERR_FREQ_FIXED']]                                  
# # df_bySNP_numeric

# AV_SNP_stats.to_csv('AV_SNP_error_background(+more)_general_stats.csv')

AV_SNP_stats.to_csv('AV_SNP_error_background(+more)_general_stats.csv')

AV_SNP_stats.columns

MultiIndex(levels=[['ADJUSTEDFREQUENCY', 'ALL_READS', 'ALT_COUNT', 'ALT_FREQ', 'ALT_FREQ_TOTAL', 'BACKGROUND', 'DONORFREQUENCY', 'DONORFREQUENCYTOTAL', 'ERR_COUNT', 'ERR_FREQ_FIXED', 'ERR_FREQ_TOTAL', 'REFALTFRACTION', 'REF_ALT_READS', 'REF_COUNT', 'REF_FREQ', 'REF_FREQ_TOTAL', 'RELATIVE_COVERAGE'], ['count', 'mean', 'std', 'min', '25%', '50%', '75%', 'max']],
           labels=[[0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 2, 3, 3, 3, 3, 3, 3, 3, 3, 4, 4, 4, 4, 4, 4, 4, 4, 5, 5, 5, 5, 5, 5, 5, 5, 6, 6, 6, 6, 6, 6, 6, 6, 7, 7, 7, 7, 7, 7, 7, 7, 8, 8, 8, 8, 8, 8, 8, 8, 9, 9, 9, 9, 9, 9, 9, 9, 10, 10, 10, 10, 10, 10, 10, 10, 11, 11, 11, 11, 11, 11, 11, 11, 12, 12, 12, 12, 12, 12, 12, 12, 13, 13, 13, 13, 13, 13, 13, 13, 14, 14, 14, 14, 14, 14, 14, 14, 15, 15, 15, 15, 15, 15, 15, 15, 16, 16, 16, 16, 16, 16, 16, 16], [0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7, 0, 1, 2, 3, 4, 5, 6, 7]])

help(pd.DataFrame.nlargest)

Help on function nlargest in module pandas.core.frame:

nlargest(self, n, columns, keep='first')
    Get the rows of a DataFrame sorted by the `n` largest
    values of `columns`.
    
    .. versionadded:: 0.17.0
    
    Parameters
    ----------
    n : int
        Number of items to retrieve
    columns : list or str
        Column name or names to order by
    keep : {'first', 'last', False}, default 'first'
        Where there are duplicate values:
        - ``first`` : take the first occurrence.
        - ``last`` : take the last occurrence.
    
    Returns
    -------
    DataFrame
    
    Examples
    --------
    >>> df = DataFrame({'a': [1, 10, 8, 11, -1],
    ...                 'b': list('abdce'),
    ...                 'c': [1.0, 2.0, np.nan, 3.0, 4.0]})
    >>> df.nlargest(3, 'a')
        a  b   c
    3  11  c   3
    1  10  b   2
    2   8  d NaN

AV_SNP_stats.BACKGROUND.nlargest(20, columns=['mean']).drop(['count'],axis=1).iplot(kind='bar', title="AV Blanks - Background stats", 
                                        theme='ggplot', logy=False, orientation='horizontal', sortbars=True,)

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/cufflinks/plotlytools.py:123: FutureWarning:

sort is deprecated, use sort_values(inplace=True) for INPLACE sorting

AV_SNP_stats.BACKGROUND.describe()

	count	mean	std	min	25%	50%	75%	max
count	265.000000	258.000000	256.000000	258.000000	258.000000	258.000000	258.000000	258.000000
mean	143.649057	0.000421	0.000075	0.000294	0.000362	0.000412	0.000473	0.000606
std	41.298725	0.000464	0.000105	0.000296	0.000385	0.000454	0.000540	0.000715
min	0.000000	0.000167	0.000016	0.000121	0.000153	0.000162	0.000167	0.000167
25%	157.000000	0.000179	0.000018	0.000143	0.000165	0.000179	0.000191	0.000220
50%	160.000000	0.000180	0.000019	0.000144	0.000166	0.000180	0.000193	0.000235
75%	160.000000	0.000271	0.000036	0.000148	0.000174	0.000202	0.000330	0.000435
max	160.000000	0.001575	0.000337	0.001055	0.001496	0.001606	0.001750	0.002116

AV_SNP_stats.ADJUSTEDFREQUENCY.nlargest(20, columns=['mean']).drop(['count'],axis=1).iplot(kind='bar', title="AV Blanks - AdjFreq stats", 
                                        theme='ggplot', logy=False, orientation='horizontal', sortbars=True,)

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/cufflinks/plotlytools.py:123: FutureWarning:

sort is deprecated, use sort_values(inplace=True) for INPLACE sorting

AV_SNP_stats.ADJUSTEDFREQUENCY.nsmallest(20, columns=['mean']).drop(['count'],axis=1).iplot(kind='bar', title="AV Blanks - AdjFreq stats", 
                                        theme='ggplot', logy=False, orientation='horizontal', sortbars=True,)

/Users/jcollins-macbook/anaconda3/lib/python3.6/site-packages/cufflinks/plotlytools.py:123: FutureWarning:

sort is deprecated, use sort_values(inplace=True) for INPLACE sorting

AV_SNP_stats.ADJUSTEDFREQUENCY.describe()

	count	mean	std	min	25%	50%	75%	max
count	265.000000	258.000000	256.000000	258.000000	258.000000	258.000000	258.000000	258.000000
mean	143.649057	0.205619	0.209457	0.001465	0.020342	0.159086	0.408443	0.480898
std	41.298725	0.079875	0.039569	0.030894	0.081386	0.201397	0.136541	0.077068
min	0.000000	-0.000167	0.000301	-0.002116	-0.001414	-0.001006	-0.000167	-0.000167
25%	157.000000	0.151772	0.202986	-0.000349	-0.000167	0.000317	0.426659	0.497523
50%	160.000000	0.206468	0.220219	-0.000219	0.000023	0.001235	0.464285	0.498968
75%	160.000000	0.251562	0.231617	-0.000210	0.000325	0.409708	0.480335	0.499542
max	160.000000	0.495494	0.242007	0.495494	0.495494	0.495494	0.495494	0.499840

!jupyter nbconvert --to slides AlloSure_SNP_error_analysis_160412.ipynb